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1.
The purpose of this table is to provide the community with a citable record of publications of ongoing genome sequencing projects that have led to a publication in the scientific literature. While our goal is to make the list complete, there is no guarantee that we may have omitted one or more publications appearing in this time frame. Readers and authors who wish to have publications added to subsequent versions of this list are invited to provide the bibliographic data for such references to the SIGS editorial office.
- Phylum Crenarchaeota
- Thermoproteus tenax, strain Kra1, DSM 2078T sequence accession [ FN8698591]
- Phylum Euryarchaeota
- Haloarcula hispanica CGMCC 1.2049, sequence accession (chromosome I), CP002921 (chromosome II), and CP002922 (plasmid pHH400) [ CP0029232]
- Methanococcus maripaludis, strain X1 (unculturable) sequence accession [ CP0029133]
- Phylum Proteobacteria
- Acinetobacter baumannii strain 1656-2, sequence accession [ CP0019214]
- Arcobacter butzleri strain ED-1, sequence accession , AP012047, and AP012048 [ AP0120495]
- Brucella suis strain 1330, sequence accession and CP002997 [ CP0029986]
- Campylobacter fetus subsp. venerealis NCTC 10354, sequence accession [ AFGH010000007]
- “Chromobacterium sp.” strain C-61, sequence accession to CAEE01000001 [ CAEE010011188]
- Cronobacter sakazakii strain E899, sequence accession [ AFMO000000009]
- “Desulfovibrio sp.” strain A2, sequence accession [ AGFG0100000010]
- “Erythrobacter sp.” strain NAP1, sequence accession [ NZ_AAMW0000000011]
- Escherichia coli strain XH140A, sequence accession [ AFVX0100000012]
- Escherichia coli strain XH001, sequence accession [ AFYG0100000013]
- Haemophilus haemolyticus strain , sequence accession M19107 [ AFQN0000000014]
- Haemophilus haemolyticus strain , sequence accession M19501 [ AFQO0000000014]
- Haemophilus haemolyticus strain , sequence accession M21127 [ AFQP0000000014]
- Haemophilus haemolyticus strain , sequence accession M21621 [ AFQQ0000000014]
- Haemophilus haemolyticus strain , sequence accession M21639 [ AFQR0000000014]
- Idiomarina sp.” strain A28L, sequence accession [ AFPO01000001 to AFPO0100002815]
- Ketogulonicigenium vulgare” strain WSH-001, sequence accession (chromosome), CP002018 (plasmid pKVU_100), and CP002019 (plasmid pKVU_200) [ CP00202016]
- Methylobacter tundripaludum strain SV96, sequence accession [ AEGW0000000017]
- Pseudogulbenkiania sp.” strain NH8B, sequence accession [ AP01222418]
- Pseudomonas aeruginosa NCGM1179, sequence accession through DF126593 [ DF12661319]
- Pseudomonas putida strain B001, sequence accession to CAED01000001 [ CAEE0100026220]
- Pseudomonas putida strain B6-2, sequence accession [ AGCS0100000021]
- Pseudomonas stutzeri CGMCC 1.1803, sequence accession [ CP00288122]
- Ralstonia solanacearum phylotype IB, strain Y45, sequence accession [ AFWL0100000023]
- Rheinheimera sp.” strain A13L, sequence accession through AFHI01000001 [ AFHI0100007224]
- Sphingobium yanoikuyae strain XLDN2-5, sequence accession [ AFXE0100000025]
- Vibrio cholerae strain Amazonia, sequence accession [ AFSV0100000026]
- Phylum Firmicutes
- Bacillus coagulans strain XZL4, sequence accession [ AFWM0100000027]
- Bacillus megaterium strain WSH-002, sequence accession (chromosome), plasmids CP003017 (plasmid pBME_100), CP003018 (plasmid pBME_200), and CP003019 (plasmid pBME_300) [ CP00302028]
- Bacillus pumilus strain S-1, sequence accession [ AGBY0000000029]
- “Desulfosporosinus sp.” strain OT, sequence accession [ AGAF0100000030]
- Lentibacillus jeotgali strain Grbi, sequence accession [ AGAV0100000031]
- Leuconostoc carnosum KCTC 3525, sequence accession [ BACM0100000032]
- Listeria ivanovii subsp. ivanovii strain PAM 55, sequence accession [ FR68725333]
- Paenibacillus riograndensis strain SBR5, sequence accession [ AGBD0100000034]
- Sporolactobacillus inulinus strain CASD, sequence accession [ AFVQ0000000035]
- Streptococcus pseudopneumoniae strain IS7493, sequence accession and CP002925 [ CP00292636]
- Streptococcus salivarius strain 57.I, sequence accession and CP002888 [ CP00288937]
- Streptococcus salivarius strain M18, sequence accession [ AGBV0100000038]
- Streptococcus suis SS12, sequence accession [ CP00264039]
- Streptococcus suis D9, sequence accession [ CP00264139]
- Streptococcus suis D12, sequence accession [ CP00264439]
- Streptococcus suis ST1, sequence accession [ CP00265139]
- Weissella thailandensis strain fsh4-2, sequence accession through HE575133 [ HE57518240]
- Phylum Tenericutes
- Mycoplasma anatis strain 1340, sequence accession [ AFVJ0000000041]
- Mycoplasma capricolum subsp. capripneumoniae strain M1601, sequence accession [ AENG0100000042]
- Mycoplasma putrefaciens Type strain KS1, sequence accession [ CP00302143]
- Corynebacterium pseudotuberculosis strain PAT10, sequence accession [ CP00292444]
- Phylum Actinobacteria
- Bifidobacterium animalis subsp. lactis strain BLC1, sequence accession [ CP00303945]
- Bifidobacterium breve strain DPC 6330, sequence accession [ AFXX0100000046]
- Brachybacterium squillarum strain M-6-3, sequence accession [ AGBX0100000047]
- “Citricoccus sp.” strain CH26A, sequence accession [ AFXQ0100000048]
- Corynebacterium glutamicum strain S9114, sequence accession [ AFYA0100000049]
- Dietzia alimentaria strain 72, sequence accession [ AGFF0100000050]
- Mycobacterium colombiense CECT 3035, sequence accession [ AFVW0000000051]
- Mycobacterium tuberculosis NCGM2209, sequence accession and DF126614 [ DF12661552]
- Rhodococcus erythropolis strain XP, sequence accession [ AGCF0100000053]
- Serinicoccus profundi MCCC 1A05965T, sequence accession [ AFYF0000000054]
- Phylum Spirochaetes
- Leptospira interrogans, sequence accession (CI), CP001221 (CII) [ CP00122255]
- Phylum Bacteroidetes
- Bacteroides faecis Type strain MAJ27T, sequence accession [ AGDG0100000056]
- Bizionia argentinensis, Type strain JUB59T sequence accession [ AFXZ0100000057]
- Flavobacterium branchiophilum strain FL-15, sequence accession [ FQ85918358]
- “Flavobacteriaceae” strain S85, sequence accession [ AFPK0000000059]
- Phylum Thermotogae
- “Thermotoga sp.” strain RQ2, sequence accession [ CP00096960]
Non-Bacterial genomes
- Aspergillus kawachii IFO 4308, sequence accession through DF126447, BACL01000001 through BACL01001641, DF126592 [ AP01227261]
- Cajanus cajan pigeonpea, sequence accession PRJNA72815 [62]
- Coxsackievirus A22, sequence accession [ JN54251063]
- Gordonia phage GRU1, sequence accession [ JF92379764]
- Gordonia phage GTE5, sequence accession [ JF92379664]
- Heterocephalus glaber naked mole rat, sequence accession , AFSB00000000 [ AFSB0100000065]
- Human Adenovirus Prototype 17, sequence accession [ HQ91040766]
- Macaca mulatta lasiota rhesus macaque, sequence accession [ AEHL0000000067]
- Macaca mulatta mulatta rhesus macaque, sequence accession [ AEHK0000000067]
- Porcine epidemic diarrhea virus, sequence accession [ JN54722868]
2.
The purpose of this table is to provide the community with a citable record of publications of ongoing genome sequencing projects that have led to a publication in the scientific literature. While our goal is to make the list complete, there is no guarantee that we may have omitted one or more publications appearing in this time frame. Readers and authors who wish to have publications added to subsequent versions of this list are invited to provide the bibliographic data for such references to the SIGS editorial office.
Phylum Euryarchaeota
- Halococcus hamelinensis, sequence accession PRJNA80845 [1]
- “Methanocella conradii” HZ254, sequence accession [ CP0032432]
- Thermococcus litoralis NS-C, sequence accession [ AHVB000000003]
Phylum Crenarchaeota
- Candidatus Nitrosopumilus salaria” BD31, sequence accession [ AEXL000000004]
- Candidatus Nitrosoarchaeum limnia, sequence accession [ AHJG000000005]
Phylum Deinococcus-Thermus
- Deinococcus gobiensis, sequence accession [ CP0025366]
Phylum Proteobacteria
- Aggregatibacter actinomycetemcomitans strain ANH9381, sequence accession [ CP0030997]
- Alishewanella jeotgali, sequence accession [ AHTH000000008]
- Enterobacter aerogenes KCTC 2190, sequence accession [ CP0028249]
- Escherichia coli O104:H4, sequence accession [ AFOB0200009210]
- Helicobacter pylori strains 17874, sequence accession PRJNA76569 [11]
- Helicobacter pylori strains P79, sequence accession PRJNA76567 [11]
- Janthinobacterium sp. Strain PAMC 25724, sequence accession [ AHHB0000000012]
- Klebsiella oxytoca KCTC 1686, sequence accession [ CP00321813]
- Klebsiella pneumoniae subsp. pneumoniae HS11286, sequence accession (chromosome), CP003200 (plasmid pKPHS1), CP003223 (plasmid pKPHS2), CP003224 (plasmid pKPHS3), CP003225 (plasmid pKPHS4), CP003226 (plasmid pKPHS5), CP003227 (plasmid pKPHS6) [ CP00322814]
- Oceanimonas sp. GK1, sequence accession [ CP00317115]
- “Pseudogulbenkiania ferrooxidans” Strain 2002, sequence accession [ NZ_ACIS0100000016]
- Pseudomonas extremaustralis 14-3b, sequence accession [ AHIP0000000017]
- Pseudomonas sp. Strain PAMC 25886, sequence accession [ AHHC0000000018]
- Psychrobacter, sequence accession [ AHVZ0000000019]
- Rahnella sp. Strain Y9602, sequence accession [ CP00250520]
- Rhizobium sp. Strain PDO1-076, sequence accession [ AHZC0000000021]
- Rhodospirillum photometricum DSM122, sequence accession [ HE66349322]
- “Rickettsia sibirica sibirica”, sequence accession [ AHIZ0000000023]
- Rickettsia sibirica subsp. mongolitimonae strain HA-91, sequence accession [ AHZB0000000024]
- Salmonella enterica subsp. enterica Serotype Enteritidis Strain LA5, sequence accession [25]
- Salmonella enterica subsp. enterica Serotype Senftenberg Strain SS209, sequence accession [ CAGQ0000000026]
- Salmonella enterica subsp. enterica Serovar Typhi P-stx-12, sequence accession (chromosome) and CP003278 (plasmid) [ CP00327927]
- Sphingomonas echinoides ATCC 14820, sequence accession [ AHIR0000000028]
- Strain HIMB55, sequence accession [ AGIF0000000029]
- Vibrio harveyi CAIM 1792, sequence accession [ AHHQ0000000030]
- Wolbachia Strain wAlbB, sequence accession [ CAGB01000001 to CAGB0100016531]
- Xanthomonas axonopodis pv. punicae Strain LMG 859, sequence accession [ CAGJ01000001 to CAGJ0100021732]
Phylum Tenericutes
- Mycoplasma hyorhinis Strain GDL-1, sequence accession [ CP00323133]
Phylum Firmicutes
- Bacillus subtilis, sequence accession BGSCID 3A27 through BGSCID 28A4 [34]
- Clostridium difficile Strain CD37, sequence accession [ AHJJ0000000035]
- Clostridium perfringens, sequence accession [ AFES0000000036]
- Lactobacillus fructivorans KCTC 3543, sequence accession [ AEQY0000000037]
- Lactococcus lactis IO-1, sequence accession [ AP01228138]
- Lactobacillus plantarum strain NC8, sequence accession [ AGRI0000000039]
- Paenibacillus dendritiformis C454, sequence accession [ AHKH0000000040]
- Paenibacillus sp. Strain Aloe-11, sequence accession [ AGFI0000000041]
- “Peptoniphilus rhinitidis” 1-13T, sequence accession [ BAEW01000001 to BAEW0100005642]
- Streptococcus macedonicus ACA-DC 198, sequence accession and HE613569 [ HE61357043]
- Staphylococcus aureus VC40, sequence accession [ CP00303344]
- Streptococcus infantarius subsp. infantarius Strain CJ18, sequence accession (chromosome), CP003295 (plasmid) [ CP00329645]
- Streptococcus macedonicus ACA-DC 198, sequence accession (chromosome), HE613569 (plasmid pSMA198) [ HE61357046]
Phylum Actinobacteria
- Actinoplanes sp. SE50/110, sequence accession [ CP00317047]
- Amycolatopsis sp. Strain ATCC 39116, sequence accession [48]
- Nocardia cyriacigeorgica GUH-2, sequence accession [ FO08284349]
- Salinibacterium sp., sequence accession [ AHWA0000000050]
- Streptomyces acidiscabies 84-104, sequence accession [ AHBF0000000051]
Non-Bacterial genomes
- Bluetongue Virus Serotype 2, sequence accession (Seg-6) and AJ783905 (Seg-1), JQ681257 (Seg-1), JQ681257 (Seg-2), JQ681258 (Seg-3), JQ681259 (Seg-4), JQ681260 (Seg-5), JQ681261 (Seg-7), JQ6812563 (Seg-8), JQ6812564 (Seg-9), to JQ681262 (Seg-10) [ JQ68126552]
- Virus Serotype 1, sequence accession (Seg-2), AJ585111 (Seg-6), AJ586659 (Seg-1), JQ282770 (Seg-3), JQ282771 (Seg-4), JQ282772 (Seg-5), JQ282773 (Seg-7), JQ282774 (Seg-8), JQ282775 (Seg-9), and JQ282776 (Seg-10) [ JQ28277752]
- Chloroplast genome of Erycina pusilla, sequence accession JF_746994 [53]
- Danio rerio, sequence accession [ JQ43410154]
- Enterococcal Bacteriophage SAP6, sequence accession [ JF73112855]
- Eubenangee virus, sequence accession through JQ070376 [ JQ07038556]
- Fujian/411-like viruses, sequence accession [ CY087969 to CY08856857]
- Hantavirus Variant of Rio Mamoré Virus, Maripa Virus, sequence accession (segment S), JQ611712 (segment M), and JQ611713 (segment L) [ JQ61171458]
- Pata virus, sequence accession through JQ070386 [ JQ07039559]
- Porcine Circovirus 2, sequence accession [ JQ41380860]
- Porcine Reproductive and Respiratory Syndrome Virus, sequence accession [ JQ32627161]
- Streptococcus mutans Phage M102AD, sequence accession [ DQ38616262]
- Tilligery virus, sequence accession through JQ070366 [ JQ07037563]
3.
The primary objective of this study was to construct an immune-related long noncoding RNAs (IRLs) classifier to precisely predict the prognosis and immunotherapy response of patients with thymic epithelial tumors (TET). Based on univariable Cox regression analysis and Lasso regression, six prognosis-related IRLs (AC004466.3, , AC138207.2, AC148477.2, HOXB-AS1 and SNHG8) were selected to build an IRL classifier. Importantly, results of qRT-PCR validated that higher expression levels of AL450270.1, AC138207.2, AC148477.2 and SNHG8 as well as lower expression levels of AC004466.3, and HOXB-AS1 in TETs samples compared with normal controls. The IRL classifier could effectively classify patients into the low-risk and high-risk groups based on the different survival parameters. In terms of predictive ability and clinical utility, the IRL classifier was superior to Masaoka staging system. Additionally, IRL classifier is significantly associated with immune cells infiltration (dendritic cells, activated CD4 memory T cells and tumor-infiltrating lymphocyte (TIL), T cell subsets in particular), immune microenvironment (immune score and immune checkpoint inhibitors) and immunogenicity (TMB) in TETs, which hints that IRL classifier is tightly correlated with immune characteristics and might guide more effective immunotherapy strategies for TETs patients. Encouragingly, according to TIDE algorithm, there were more immunotherapy responders in the low-risk IRL subgroup and the IRL score was robustly negatively linked to the immunotherapeutic response. To sum up, the IRL classifier was established, which can be used to predict the prognosis, immune infiltration status, immunotherapy response in TETs patients, and may facilitate personalized counseling for immunotherapy. AL450270.1相似文献
4.
5.
damo Davi Digenes Siena Isabela Ichihara de Barros Camila Baldin Storti Carlos Alberto Oliveira de Biagi Júnior Larissa Anastacio da Costa Carvalho Silvya Stuchi MariaEngler Josane de Freitas Sousa Wilson Araújo Silva Jr 《Journal of cellular and molecular medicine》2022,26(3):671
Our previous work using a melanoma progression model composed of melanocytic cells (melanocytes, primary and metastatic melanoma samples) demonstrated various deregulated genes, including a few known lncRNAs. Further analysis was conducted to discover novel lncRNAs associated with melanoma, and candidates were prioritized for their potential association with invasiveness or other metastasis‐related processes. In this sense, we found the intergenic lncRNA (ENSG00000230454) and decided to explore its effects in melanoma. For that, we silenced the lncRNA U73166 expression using shRNAs in a melanoma cell line. Next, we experimentally investigated its functions and found that migration and invasion had significantly decreased in knockdown cells, indicating an essential association of lncRNA U73166 for cancer processes. Additionally, using naïve and vemurafenib‐resistant cell lines and data from a patient before and after resistance, we found that vemurafenib‐resistant samples had a higher expression of lncRNA U73166. Also, we retrieved data from the literature that indicates lncRNA U73166 may act as a mediator of RNA processing and cell invasion, probably inducing a more aggressive phenotype. Therefore, our results suggest a relevant role of lncRNA U73166 in metastasis development. We also pointed herein the lncRNA U73166 as a new possible biomarker or target to help overcome clinical vemurafenib resistance. U73166相似文献
6.
The small chaperone protein Hsp27 confers resistance to apoptosis, and therefore is an attractive anticancer drug target. We report here a novel mechanism underlying the tumor necrosis factor-related apoptosis-inducing ligand (TRAIL) sensitizing activity of the small molecule , an inactive analog of the phosphoinositide 3-kinase inhibitor inhibitor LY303511, in HeLa cells that are refractory to TRAIL-induced apoptosis. On the basis of the fact that LY294002 is derived from LY303511, itself derived from quercetin, and earlier findings indicating that quercetin and LY294002 affected Hsp27 expression, we investigated whether LY294002 sensitized cancer cells to TRAIL via a conserved inhibitory effect on Hsp27. We provide evidence that upon treatment with LY303511, Hsp27 is progressively sequestered in the nucleus, thus reducing its protective effect in the cytosol during the apoptotic process. LY303511-induced nuclear translocation of Hsp27 is linked to its sustained phosphorylation via activation of p38 kinase and MAPKAP kinase 2 and the inhibition of PP2A. Furthermore, Hsp27 phosphorylation leads to the subsequent dissociation of its large oligomers and a decrease in its chaperone activity, thereby further compromising the death inhibitory activity of Hsp27. Furthermore, genetic manipulation of Hsp27 expression significantly affected the TRAIL sensitizing activity of LY303511, which corroborated the Hsp27 targeting activity of LY303511. Taken together, these data indicate a novel mechanism of small molecule sensitization to TRAIL through targeting of Hsp27 functions, rather than its overall expression, leading to decreased cellular protection, which could have therapeutic implications for overcoming chemotherapy resistance in tumor cells. LY303511相似文献
7.
In this short report, the genome-wide homologous recombination events were re-evaluated for classical swine fever virus (CSFV) strain . We challenged a previous study which suggested only one recombination event in AF407339 based on 25 CSFV genomes. Through our re-analysis on the 25 genomes in the previous study and the 41 genomes used in the present study, we argued that there should be possibly at least two clear recombination events happening in AF407339 through genome-wide scanning. The reasons for identifying only one recombination event in the previous study might be due to the limited number of available CSFV genome sequences at that time and the limited usage of detection methods. In contrast, as identified by most detection methods using all available CSFV genome sequences, two major recombination events were found at the starting and ending zones of the genome AF407339, respectively. The first one has two parents AF407339 (minor) and AF333000 (major) with beginning and ending breakpoints located at 19 and 607 nt of the genome respectively. The second one has two parents AY554397 (minor) and AF531433 (major) with beginning and ending breakpoints at 8397 and 11,078 nt of the genome respectively. Phylogenetic incongruence analysis using neighbor-joining algorithm with 1000 bootstrapping replicates further supported the existence of these two recombination events. In addition, we also identified additional 18 recombination events on the available CSFV strains. Some of them may be trivial and can be ignored. In conclusion, CSFV might have relatively high frequency of homologous recombination events. Genome-wide scanning of identifying recombination events should utilize multiple detection methods so as to reduce the risk of misidentification. GQ902941相似文献
8.
9.
Lavanya Rishishwar Lee S. Katz Nitya V. Sharma Lori Rowe Michael Frace Jennifer Dolan Thomas Brian H. Harcourt Leonard W. Mayer I. King Jordan 《Journal of bacteriology》2012,194(20):5649-5656
Containment strategies for outbreaks of invasive Neisseria meningitidis disease are informed by serogroup assays that characterize the polysaccharide capsule. We sought to uncover the genomic basis of conflicting serogroup assay results for an isolate () from a patient with acute meningococcal disease. To this end, we characterized the complete genome sequence of the M16917 isolate and performed a variety of comparative sequence analyses against N. meningitidis reference genome sequences of known serogroups. Multilocus sequence typing and whole-genome sequence comparison revealed that M16917 is a member of the ST-11 sequence group, which is most often associated with serogroup C. However, sequence similarity comparisons and phylogenetic analysis showed that the serogroup diagnostic capsule polymerase gene (synD) of M16917 belongs to serogroup B. These results suggest that a capsule-switching event occurred based on homologous recombination at or around the capsule locus of M16917. Detailed analysis of this locus uncovered the locations of recombination breakpoints in the M16917 genome sequence, which led to the introduction of an ∼2-kb serogroup B sequence cassette into the serogroup C genomic background. Since there is no currently available vaccine for serogroup B strains of N. meningitidis, this kind capsule-switching event could have public health relevance as a vaccine escape mutant. M16917相似文献
10.
Senbagam Duraisamy Fazal Husain Senthilkumar Balakrishnan Aswathy Sathyan Prabhu Subramani Prahalathan Chidambaram Selvaraj Arokiyaraj Wahidah H. Al-Qahtani Jothiramalingam Rajabathar Anbarasu Kumarasamy 《Current issues in molecular biology》2022,44(2):731
Breast milk is the combination of bioactive compounds and microflora that promote newborn’s proper growth, gut flora, and immunity. Thus, it is always considered the perfect food for newborns. Amongst their bioactives, probiotic communities—especially lactic acid bacteria (LAB)—are characterized from breast milk over the first month of parturition. In this study, seven LAB were characterized phenotypically and genotypically as Levilactobacillus brevis BDUMBT08 (), L. gastricus BDUMBT09 ( MT673657), L. paracasei BDUMBT10 ( MT774596), L. brevis BDUMBT11 ( MT775430), L. casei BDUMBT12 ( MW785062), L. casei BDUMBT13 ( MW785063), and Brevibacillus brevis M2403 ( MW785178) from human breast milk. Their tolerance to lysozyme, acid, bile, gastric juice, pancreatic juice, and NaCl and potential for mucoadhesion, auto-aggregation, and co-aggregation with pathogens are of great prominence in forecasting their gut colonizing ability. They proved their safety aspects as they were negative for virulence determinants such as hemolysis and biofilm production. Antibiogram of LAB showed their sensitivity to more than 90% of the antibiotics tested. Amongst seven LAB, three isolates (L. brevis BDUMBT08 and BDUMBT11, and L. gatricus BDUMBT09) proved their bacteriocin producing propensity. Although the seven LAB isolates differed in their behavior, their substantial probiotic properties with safety could be taken as promising probiotics for further studies to prove their in vivo effects, such as health benefits, in humans. MK371781相似文献
11.
The purpose of this table is to provide the community with a citable record of publications of ongoing genome sequencing projects that have led to a publication in the scientific literature. While our goal is to make the list complete, there is no guarantee that we may have omitted one or more publications appearing in this time frame. Readers and authors who wish to have publications added to subsequent versions of this list are invited to provide the bibliographic data for such references to the SIGS editorial office.
Phylum Crenarchaeota
- Pyrobaculum strain 1860, sequence accession [ CP0030981]
Phylum Deinococcus-Thermus
- “Thermus sp.” Strain CCB_US3_UF1, sequence accession (chromosome), CP003126 (plasmid) [ CP0031272]
Phylum Proteobacteria
- “Achromobacter arsenitoxydans” SY8, sequence accession [ AGUF000000003]
- Acidovorax sp. Strain NO1, sequence accession [ AGTS000000004]
- Acinetobacter baumannii AB4857, sequence accession [ AHAG000000005]
- Acinetobacter baumannii AB5075, sequence accession [ AHAH000000005]
- Acinetobacter baumannii AB5256, sequence accession [ AHAI000000005]
- Acinetobacter baumannii AB5711, sequence accession [ AHAJ000000005]
- Aeromonas salmonicida, sequence accession [ AGVO000000006]
- Aggregatibacter actinomycetemcomitans RHAA1, sequence accession [ AHGR000000007]
- Agrobacterium tumefaciens 5A, sequence accession [ AGVZ000000008]
- Azoarcus sp. Strain KH32C, sequence accession , AP012304 [ AP0123059]
- Burkholderia sp. Strain YI23, sequence accession (Chromosome 1), CP003087 (Chromosome 2), CP003088 (Chromosome 3), CP003089 (plasmid BYI23_D), CP003090 (plasmid BYI23_E) CP003091 (plasmid BYI23_F) [ CP00309210]
- Brucella suis VBI22, sequence accession , CP003128 [ CP00312911]
- Comamonas testosteroni ATCC 11996, sequence accession [ AHIL0000000012]
- “Commensalibacter intestini” A911T, sequence accession [ AGFR0000000013]
- Edwardsiella ictaluri, sequence accession [ CP001600.114]
- Enterobacter cloacae subsp. dissolvens SDM, sequence accession [ AGSY0000000015]
- “Gluconobacter morbifer” G707T, sequence accession [ AGQV0000000016]
- Legionella dumoffii TEX-KL, sequence accession [ AGVT0000000017]
- Legionella dumoffii NY-23, sequence accession [ AGVU0000000017]
- Legionella pneumophila serogroup 12 Strain 570-CO-H, sequence accession [ CP00319218]
- Marinobacterium stanieri S30, sequence accession [ AFPL0000000019]
- “Marinobacter manganoxydans” MnI7-9, sequence accession [ CP001978 to CP00198020]
- Mesorhizobium alhagi CCNWXJ12-2T, sequence accession [ AHAM0000000021]
- Mesorhizobium amorphae, sequence accession [ AGSN0000000022]
- Methylomicrobium alcaliphilum 20Z, sequence accession and FO082060 [ FO08206123]
- Mitsuaria sp. Strain H24L5A, sequence accession [ CAFG01000001 to CAFG0100060724]
- Novosphingobium pentaromativorans US6-1, sequence accession [ AGFM0000000025]
- Pantoea ananatis B1-9, sequence accession [ CAEI01000001 to CAEI0100016926]
- Pantoea ananatis LMG 5342, sequence accession (chromosome), HE617160 (pPANA10) [ HE61716127]
- Pantoea ananatis Strain PA13, sequence accession and CP003085 [ CP00308628]
- Pseudomonas aeruginosa, sequence accession [ AFXI0000000029]
- Pseudomonas aeruginosa, sequence accession [ AFXJ0000000029]
- Pseudomonas aeruginosa, sequence accession [ AFXK0000000029]
- Pseudomonas chlororaphis GP72, sequence accession [ AHAY0100000030]
- Pseudomonas fluorescens F113, sequence accession [ CP00315031]
- Pseudomonas fluorescens Wayne 1R, sequence accession [ CADX01000001 to CADX0100009032]
- Pseudomonas fluorescens Wood1R, sequence accession to CAFF01000001 [ CAFF0100143732]
- Pseudomonas psychrotolerans L19, sequence accession [ AHBD0000000033]
- Pseudoalteromonas rubra ATCC 29570T, sequence accession [ AHCD0000000034]
- Pseudomonas stutzeri SDM-LAC, sequence accession [ AGSX0000000035]
- Pseudoxanthomonas spadix BD-a59, sequence accession [ CP00309336]
- Rickettsia slovaca, sequence accession [ CP00242837]
- Salmonella enterica serovar Pullorum RKS5078, sequence accession [ CP00304738]
- Sinorhizobium meliloti CCNWSX0020, sequence accession [ AGVV0000000039]
- Sphingobium sp. Strain SYK-6, sequence accession and AP012222 [ AP01222340]
- Sphingomonas sp. Strain PAMC 26605, sequence accession [ AHIS0000000041]
- Stenotrophomonas maltophilia RR-10, sequence accession [ AGRB0000000042]
- Strain HIMB30, sequence accession [ AGIG0000000043]
- Taylorella equigenitalis, sequence accession [ CP00305944]
- Vibrio campbellii DS40M4, sequence accession [ AGIE0000000045]
- Vibrio fischeri SR5, sequence accession [ AHIH0000000046]
- Yersinia enterocolitica, sequence accession [ AGQO0000000047]
Phylum Tenericutes
- Candidatus Mycoplasma haemominutum, sequence accession [ HE61325448]
- Mycoplasma haemocanis strain Illinois, sequence accession [ CP00319949]
- Mycoplasma iowae, sequence accession [ AGFP0000000050]
- Mycoplasma pneumoniae Type 2a Strain 309, sequence accession [ AP01230351]
Phylum Firmicutes
- Bacillus cereus F837/76, sequence accession (chromosome) CP003187 (pF837_55kb), CP003188 (pF837_10kb) [ CP00318952]
- Brevibacillus laterosporus Strain GI-9, sequence accession [ CAGD01000001 to CAGD0100006153]
- Clostridium sporogenes PA 3679, sequence accession [ AGAH0000000054]
- Enterococcus mundtii CRL1656, sequence accession [ AFWZ00000000.155]
- Geobacillus thermoleovorans CCB_US3_UF5, sequence accession [ CP00312556]
- Lactobacillus curvatus Strain CRL705, sequence accession [ AGBU0100000057]
- Lactobacillus rhamnosus ATCC 8530, sequence accession [ CP00309458]
- Lactobacillus rhamnosus R0011, sequence accession [ AGKC0000000059]
- Lactococcus garvieae TB25, sequence accession [ AGQX0100000060]
- Lactococcus garvieae LG9, sequence accession [ AGQY0100000060]
- Lactococcus lactis subsp. cremoris A76, sequence accession (chromosome), CP003132 (pQA505), CP003136 (PQA518), CP003135 (pQA549), CP003134 (pQA554) [ CP00313361]
- Leuconostoc citreum LBAE C10, sequence accession [ CAGE0000000062]
- Leuconostoc citreum LBAE C11, sequence accession [ CAGF0000000062]
- Leuconostoc citreum LBAE E16, sequence accession [ CAGG0000000062]
- Leuconostoc mesenteroides subsp. mesenteroides Strain J18, sequence accession [ CP00310163]
- Paenibacillus peoriae Strain KCTC 3763T, sequence accession [ AGFX0000000064]
- Pediococcus acidilactici MA18/5M, sequence accession [ AGKB0000000065]
- Pediococcus claussenii ATCC BAA-344T, sequence accession (chromosome), CP003137 (pPECL-1), CP003138 (pPECL-2), CP003139 (pPECL-3), CP003140 (pPECL-4), CP003141 (pPECL-5), CP003142 (pPECL-6), CP003143 (pPECL-7), CP003144 (pPECL-8) [ CP00314566]
- Staphylococcus aureus M013, sequence accession [ CP00316667]
- Staphylococcus aureus subsp. aureus TW20, sequence accession [ FN43359668]
- Weissella confusa LBAE C39-2, sequence accession [ CAGH0000000069]
Phylum Actinobacteria
- Corynebacterium casei, sequence accession [ CAFW01000001 to CAFW0100010670]
- Corynebacterium glutamicum, sequence accession [ AGQQ0000000071]
- Leucobacter chromiiresistens, sequence accession [ AGCW0000000072]
- Mycobacterium abscessus, sequence accession [ AGQU0000000073]
- Propionibacterium acnes ST9, sequence accession [ CP00319574]
- Propionibacterium acnes ST22, sequence accession [ CP00319674]
- Propionibacterium acnes ST27, sequence accession [ CP00319774]
- Saccharomonospora azurea SZMC 14600, sequence accession [ AHBX0000000075]
- Streptomyces sp. Strain TOR3209, sequence accession [ AGNH0000000076]
- Streptomyces sp. Strain W007, sequence accession [ AGSW0000000077]
Phylum Spirochaetes
- Borrelia valaisiana VS116, sequence accession (chromosome), ABCY02000001 (plasmid Ip17), CP001439 (Ip25), CP001437 (plasmid Ip 28-3), CP001440 (plasmid Ip28-8), CP001442 (Ip 36), CP001436 (plasmid Ip 54), CP001433 (plasmid cp9), CP001438 (plasmid cp26), CP001432 (plasmid cp32-5), CP001441 (plasmid cp32-7), CP001434 (plasmid cp32-10) [ CP00143578]
- “Borrelia bissettii” DN127, sequence accession (chromosome), CP002746 (plasmid Ip12), CP002756 (plasmid Ip25), CP002757 (plasmid 28-3), CP002758 (plasmid Ip 28-4), CP002759 (Ip28-7), CP002760 (plasmid Ip54), CP002761 (plasmid Ip56), CP002762 (plasmid cp9), CP002755 (plasmid cp26), CP002747 (plasmid cp32-3), CP002749 (plasmid cp32-4), CP002750 (plasmid 32-5), CP002751 (plasmid cp32-6), CP002752 (plasmid cp32-7), CP0027554 (plasmid cp32-9), CP002753 (plasmid cp32-11) [ CP00274878]
- Borrelia spielmanii A14S, sequence accession (chromosome), ABKB02000001 (plasmid Ip17), CP001468 (Ip28-3), CP001471 (plasmid Ip28-4), CP001470 (plasmid Ip28-2), CP001465 (plasmid Ip36), CP001466 (plasmid Ip38), CP001464 (plasmid Ip54), CP001469, ABKB02000016 (plasmid cp9), ABKB02000020 (plasmid cp26), CP001467 (plasmid cp32-3), ABKB02000026 (plasmid 32-5), ABKB02000031 (plasmid cp32-12), ABKB02000021 (unidentified) [ ABKB0200001478]
Non-Bacterial genomes
- Aspergillus flavus, sequence accession [ GSE3217779]
- Bacteriophage SPN3UB, sequence accession [ JQ28802180]
- Bamboo mitochondria, sequence accession [ JQ235166 to JQ23517981]
- Boea hygrometrica chloroplast, sequence accession [ JN10781182]
- Boea hygrometrica mitochondrial, sequence accession [ JN10781282]
- Canine Picornavirus, sequence accession [ JN83135683]
- Chandipura virus (CHPV) CIN0327, sequence accession [ GU212856.184]
- Chandipura virus (CHPV) CIN0451, sequence accession [ GU212857.184]
- Chandipura virus (CHPV) CIN0751, sequence accession [ GU212858.184]
- Chandipura virus (CHPV) CIN0755, sequence accession [ GU190711.184]
- Chinese Porcine Parvovirus Strain PPV2010, sequence accession [ JN87244885]
- Common midwife toad megavirus, sequence accession [ JQ23122286]
- Dengue Virus Serotype 4, sequence accession [ JN98381387]
- Duck Tembusu Virus, sequence accession [ JF27048088]
- Duck Tembusu Virus, sequence accession [ JQ31446488]
- Duck Tembusu Virus, sequence accession [ JQ31446588]
- Emiliania huxleyi Virus 202, sequence accession [ HQ63414589]
- Emiliania huxleyi Virus EhV-88, sequence accession [ JF97431089]
- Emiliania huxleyi EhV-201, sequence accession [ JF97431189]
- Emiliania huxleyi EhV-207, sequence accession [ JF97431789]
- Emiliania huxleyi EhV-208, sequence accession [ JF97431889]
- Glarea lozoyensis, sequence accession GUE00000000 [90]
- Nannochloropis gaditana, sequence accession [ AGNI0000000091]
- Oryza sativa cv., sequence accession DRA000499 [92]
- Partetravirus, sequence accession [ JN99026993]
- Porcine Bocavirus PBoV5, sequence accession [ JN83165194]
- Porcine epidemic diarrhea virus, sequence accession [ JQ28290995]
- Pseudomonas aeruginosa lytic bacteriophage PA1Ø, sequence accession [ HM62408096]
- Pseudomonas fluorescens phage OBP, sequence accesssion [ JN62716097]
- RNA Virus from Avocado, sequence accession [ JN88041498]
- Salmonella enterica Serovar Typhimurium Bacteriophage SPN1S, sequence accession [ JN39118099]
- Schistosoma haematobium, sequence accession PRJNA78265 [100]
- Schistosoma mansoni, sequence accession [ ERP00038101]
- Stenopirates sp., sequence accession [ JN100019102]
- T7-Like Virus, sequence accession [ JN651747103]
- Vibrio harveyi siphophage VHS1, sequence accession [ JF713456104]
- Tyrolean ice man, sequence accession ERP001144 [105]
12.
13.
Nidiane D. R. Prado Soraya S. Pereira Michele P. da Silva Michelle S. S. Morais Anderson M. Kayano Leandro S. Moreira-Dill Marcos B. Luiz Fernando B. Zanchi André L. Fuly Maribel E. F. Huacca Cleberson F. Fernandes Leonardo A. Calderon Juliana P. Zuliani Luiz H. Pereira da Silva Andreimar M. Soares Rodrigo G. Stabeli Carla F. C. Fernandes 《PloS one》2016,11(3)
Antivenoms, produced using animal hyperimmune plasma, remains the standard therapy for snakebites. Although effective against systemic damages, conventional antivenoms have limited efficacy against local tissue damage. Additionally, the hypersensitivity reactions, often elicited by antivenoms, the high costs for animal maintenance, the difficulty of producing homogeneous lots, and the instability of biological products instigate the search for innovative products for antivenom therapy. In this study, camelid antibody fragments (VHH) with specificity to Bothropstoxin I and II (BthTX-I and BthTX-II), two myotoxic phospholipases from Bothrops jararacussu venom, were selected from an immune VHH phage display library. After biopanning, 28 and 6 clones recognized BthTX-I and BthTX-II by ELISA, respectively. Complementarity determining regions (CDRs) and immunoglobulin frameworks (FRs) of 13 VHH-deduced amino acid sequences were identified, as well as the camelid hallmark amino acid substitutions in FR2. Three VHH clones (, KF498607, and KF498608) were capable of recognizing BthTX-I by Western blot and showed affinity constants in the nanomolar range against both toxins. VHHs inhibited the BthTX-II phospholipase A2 activity, and when tested for cross-reactivity, presented specificity to the Bothrops genus in ELISA. Furthermore, two clones ( KC329718 and KC329718) neutralized the myotoxic effects induced by B. jararacussu venom, BthTX-I, BthTX-II, and by a myotoxin from Bothrops brazili venom (MTX-I) in mice. Molecular docking revealed that VHH CDRs are expected to bind the C-terminal of both toxins, essential for myotoxic activity, and to epitopes in the BthTX-II enzymatic cleft. Identified VHHs could be a biotechnological tool to improve the treatment for snake envenomation, an important and neglected world public health problem. KF498607相似文献
14.
15.
Caroline E. Sanvitale Georgina Kerr Apirat Chaikuad Marie-Christine Ramel Agustin H. Mohedas Sabine Reichert You Wang James T. Triffitt Gregory D. Cuny Paul B. Yu Caroline S. Hill Alex N. Bullock 《PloS one》2013,8(4)
Growth factor signaling pathways are tightly regulated by phosphorylation and include many important kinase targets of interest for drug discovery. Small molecule inhibitors of the bone morphogenetic protein (BMP) receptor kinase ALK2 (ACVR1) are needed urgently to treat the progressively debilitating musculoskeletal disease fibrodysplasia ossificans progressiva (FOP). Dorsomorphin analogues, first identified in zebrafish, remain the only BMP inhibitor chemotype reported to date. By screening an assay panel of 250 recombinant human kinases we identified a highly selective 2-aminopyridine-based inhibitor with in vitro activity against ALK2 at low nanomolar concentrations similar to the current lead compound LDN-193189. K02288 specifically inhibited the BMP-induced Smad pathway without affecting TGF-β signaling and induced dorsalization of zebrafish embryos. Comparison of the crystal structures of ALK2 with K02288 and LDN-193189 revealed additional contacts in the K02288 complex affording improved shape complementarity and identified the exposed phenol group for further optimization of pharmacokinetics. The discovery of a new chemical series provides an independent pharmacological tool to investigate BMP signaling and offers multiple opportunities for pre-clinical development. K02288相似文献
16.
Marius R. Robciuc Paulina Skrobuk Andrey Anisimov Vesa M. Olkkonen Kari Alitalo Robert H. Eckel Heikki A. Koistinen Matti Jauhiainen Christian Ehnholm 《PloS one》2012,7(10)
Peroxisome proliferator-activated receptor (PPAR) delta is an important regulator of fatty acid (FA) metabolism. Angiopoietin-like 4 (Angptl4), a multifunctional protein, is one of the major targets of PPAR delta in skeletal muscle cells. Here we investigated the regulation of Angptl4 and its role in mediating PPAR delta functions using human, rat and mouse myotubes. Expression of Angptl4 was upregulated during myotubes differentiation and by oleic acid, insulin and PPAR delta agonist . Treatment with GW501516 or Angptl4 overexpression inhibited both lipoprotein lipase (LPL) activity and LPL-dependent uptake of FAs whereas uptake of BSA-bound FAs was not affected by either treatment. Activation of retinoic X receptor (RXR), PPAR delta functional partner, using bexarotene upregulated Angptl4 expression and inhibited LPL activity in a PPAR delta dependent fashion. Silencing of Angptl4 blocked the effect of GW501516 and bexarotene on LPL activity. Treatment with GW501516 but not Angptl4 overexpression significantly increased palmitate oxidation. Furthermore, Angptl4 overexpression did not affect the capacity of GW501516 to increase palmitate oxidation. Basal and insulin stimulated glucose uptake, glycogen synthesis and glucose oxidation were not significantly modulated by Angptl4 overexpression. Our findings suggest that FAs-PPARdelta/RXR-Angptl4 axis controls the LPL-dependent uptake of FAs in myotubes, whereas the effect of PPAR delta activation on beta-oxidation is independent of Angptl4. GW501516相似文献
17.
The purpose of this table is to provide the community with a citable record of publications of ongoing genome sequencing projects that have led to a publication in the scientific literature. While our goal is to make the list complete, there is no guarantee that we may have omitted one or more publications appearing in this time frame. Readers and authors who wish to have publications added to this subsequent versions of this list are invited to provide the bibliometric data for such references to the SIGS editorial office.
- Phylum Crenarchaeota
- Phylum Euryarchaeota
- Pyrococcus yayanosii CH1, sequence accession [ CP0027791]
- Methanocella paludicola, sequence accession [ AP0115322]
- Halorhabdus tiamatea, sequence accession [ AFNT000000003]
- Thermococcus sp. Strain 4557, sequence accession [ CP0029204]
- Phylum Chloroflexi
- Phylum Proteobacteria
- Ralstonia solanacearum strain Po82, sequence accession (chromosome) and CP002819 (megaplasmid) [ CP0028205
- Desulfovibrio alaskensis G20, sequence accession [ CP0001126]
- Methylophaga aminisulfidivorans MPT, sequence accession [ AFIG000000007]
- Acinetobacter sp. P8-3-8, sequence accession [ AFIE000000008]
- Sphingomonas strain KC8, sequence accession [ AFMP010000009]
- Brucella pinnipedialis B2/94, sequence accession and CP002078 [ CP00207910]
- Salmonella enterica Serovar Typhimurium UK-1, sequence accession (chromosome), CP002614 (plasmid) [ CP00261511]
- Bordetella pertussis CS, sequence accession [ CP00269512]
- Alteromonas sp. Strain SN2, sequence accession [ CP00233913]
- Escherichia coli O104:H4, sequence accession ( AFOB00000000) and LB226692 (01-09591) [ AFPS0000000014]
- Acidithiobacillus caldus, sequence accession (Chromosome), CP002573 (pLAtcm), CP002574 (pLAtc1), CP002575 (pLAtc2), CP002576 (pLAtc3) [ CP00257715]
- Cupriavidus necator N-1, sequence accession (chromosome 1), CP002877 (chromosome 2), CP002878 (pBB1), and CP002879 (pBB2) [ CP00288016]
- Oligotropha carboxidovorans OM4, sequence accession (OM4 chromosome), CP002821 (pHCG3b), CP002822 (pOC167B) [ CP00282317]
- Oligotropha carboxidovorans OM5, sequence accession (OM5 chromosome), CP002826 (pHCG3), and CP002827 (pOC167) [17] CP002828
- Pantoea ananatis LMG20103, sequence accession [ CP00187518]
- Helicobacter bizzozeronii strain CIII-1, sequence accession (chromosome) and FR871757 (HBZ-1) [ FR87175819]
- Vibrio anguillarum 775, sequence accession [ CP002284 to CP00228520]
- Zymomonas mobilis subsp. pomaceae, sequence accession (chromosome), CP002865 (p29192_1), CP002866 (p29192_2) [ CP00286721]
- Agrobacterium sp. strain ATCC 31749, sequence accession [ AECL0100000022]
- Xanthomonas spp. strain Xrc, sequence accesssion [ CP00278923]
- Xanthomonas spp. strain Xoc, sequence accesssion [ AAQN0000000023]
- Glaciecola sp. Strain 4H-3-7+YE-5, sequence accession (chromosome) and CP002526 (plasmid) [ CP00252724]
- Escherichia coli Strain HM605, sequence accession through CADZ01000001 [ CADZ0100015425]
- Salinisphaera shabanensis, sequence accession [ AFNV0000000026]
- Methyloversatilis universalis FAM5T, sequence accession [ AFHG0000000027]
- Alicycliphilus denitrificans Strain BC, sequence accession (chromosome), CP002449 (megaplasmid), CP002450 (plasmid) [ CP00245128].
- Alicycliphilus denitrificans K601T, sequence accession (chromosome) and CP002657 (plasmid) [ CP00265828]
- Oligotropha carboxidovorans Strain OM4, sequence accession (chromosome), CP002821 (pHCG3b), CP002822 (pOC167B) [ CP00282329]
- Oligotropha carboxidovorans Strain OM5, sequence accession (chromosome), CP002826 (pHCG3), and CP002827 (pOC167) [ CP00282829]
- Bradyrhizobiaceae strain SG-6C, sequence accession [ AFOF0100000030]
- Hyphomicrobium sp. Strain MC1, sequence accession [ FQ85918131]
- Shewanella sp. Strain HN-41, sequence accession [ AFOZ0100000032]
- Myxococcus fulvus HW-1, sequence accession [ CP00283033]
- Nitrosomonas sp. Strain AL212, sequence accession (chromosome), NC_015222 pNAL21201), NC_015223 (pNAL21202) [ NC_01522134]
- Ruegeria sp. Strain KLH11, sequence accession [ ACCW0000000035]
- Acidovorax avenae subsp. avenae RS-1, sequence accession [ AFPT0100000036]
- Escherichia coli (ExPEC), sequence accession [ AFAT0000000037]
- Vibrio mimicus SX-4, sequence accession [ ADOO0100000038]
- Agrobacterium tumefaciens Strain F2, sequence accession [ AFSD0000000039]
- Pasteurella multocida subsp. gallicida [ AFRR01000001 to AFRR0100048940]
- Pseudomonas aeruginosa 138244, sequence accession [ AEVV0000000041]
- Pseudomonas aeruginosa 152504, sequence accession [ AEVW0000000041]
- Campylobacter jejuni strain 305, sequence accession [ ADHL0000000042]
- Campylobacter jejuni strain DFVF1099, sequence accession [ ADHK0000000042]
- Xanthomonas campestris pv. raphani strain 756C, sequence accession [ CP00278943]
- Xanthomonas campestris pv. raphani strain BLS256, sequence accession [ AAQN0100000143]
- Rickettsia heilongjiangensis, sequence accession [ CP00291244]
- Acidiphilium sp. Strain PM (DSM 24941), sequence accession [ AFPR0000000045]
- Pseudomonas putida Strain S16, sequence accession [ CP00287046]
- Acinetobacter lwoffii, sequence accession [ AFQY0100000047]
- Phylum Firmicutes
- Caldalkalibacillus thermarum strain TA2.A1, sequence accession [ AFCE0000000048]
- Listeria monocytogenes Scott A, sequence accession [ AFGI0000000049]
- Lactococcus garvieae 8831, sequence accession [ AFCD0000000050]
- Natranaerobius thermophilus JW/NM-WN-LF, sequence accession (chromosome), CP001034 (plasmid) [ CP00103551]
- Melissococcus plutonius ATCC 35311, sequence accession (chromosome) and AP012200 (plasmid) [ AP01220152]
- Lactobacillus buchneri NRRL B-30929, sequence accession (chromosome), CP002652 (plasmid pLBU01), CP002653 (plasmid pLBU02), and CP002654 (plasmid pLBU03) [ CP00265553]
- Lactobacillus kefiranofaciens ZW3 , sequence accession (chromosome), CP002764 (plasmid), and CP002765 (plasmid) [ CP00276654]
- Bacillus megaterium strain QM B1551, sequence accession (chromosome), CP001983 (plasmids pBM100 through pBM700) [ CP001984 to CP00199055]
- Bacillus megaterium strain DSM319, sequence accession (chromosome) [ CP00198255]
- Listeria monocytogenes serovar 4a strain M7, sequence accession [ CP00281656]
- Bacillus coagulans 2-6, sequence accession [ CP00247257]
- Streptococcus salivarius strain CCHSS3, sequence accession [ FR87348158]
- Paenibacillus elgii B69, sequence accession [ AFHW0100000059]
- Lactobacillus pentosus MP-10, sequence accession through FR871759 [ FR87184860]
- Leuconostoc pseudomesenteroides KCTC 3652, sequence accession AEOQ00000001 through AEOQ00001160 [61]
- Lactobacillus mali KCTC 3596, sequence accession through BACP01000001 [ BACP0100012262]
- Paenibacillus polymyxa Type Strain ATCC 842T, sequence accession [ AFOX0100000063]
- Streptococcus salivarius strain JIM8777, sequence accssion [ FR87348264]
- Lactobacillus cypricasei KCTC 13900, sequence accession [ BACS01000001 to BACS0100048765]
- Lactobacillus zeae KCTC 3804, sequence accession to BACQ101000113 [ BACQ0100000166]
- Listeria monocytogenes Serovar 4a Strain M7, sequence accession [ CP00281667]
- Lactobacillus salivarius GJ-24, sequence accession [ AFOI0000000068]
- Lactobacillus johnsonii PF01, sequence accession [ AFQJ0100000069]
- Clostridium acetobutylicum DSM 1731, sequence accession through CP002660 [ CP00266270]
- Lactobacillus suebicus KCTC 3549, sequence accession [ BACO0100000071]
- Brevibacillus laterosporus LMG 15441, sequence accession [ AFRV0000000072]
- Lactobacillus salivarius NIAS840, sequence accession [ AFMN0000000073]
- Bifidobacterium animalis subsp. lactis CNCM I-2494, sequence accession [ CP00291574]
- Megasphaera elsdenii, sequence accession [ HE57679475]
- Lactobacillus versmoldensis KCTC 3814, sequence accession [ BACR01000001 to BACR0100010276]
- Lactobacillus pentosus IG1, sequence accession [ FR874848 to FR87486077]
- Alicyclobacillus acidocaldarius Strain Tc-4-1, sequence accession [ CP00290278]
- Streptococcus thermophilus Strain JIM8232, sequence accession [ FR87517879]
- Streptococcus equi subsp. zooepidemicus Strain ATCC 35246, sequence accession [ CP00290480]
- Bacillus amyloliquefaciens XH7, sequence accession [ CP00292781]
- Leuconostoc kimchii Strain C2, sequence accession [ CP00289882]
- Lactobacillus malefermentans KCTC 3548, sequence accession [ BACN01000001 to BACN0100017283]
- Weissella koreensis KACC 15510, sequence accession [ CP00290084]
- Phylum Tenericutes
- Mycoplasma bovis Strain Hubei-1, sequence accession [ CP00251385]
- Mycoplasma fermentans Strain M64, sequence accession [ NC_01492186]
- Haloplasma contractile, sequence accession [ AFNU0000000087]
- Mycoplasma ovipneumoniae Strain SC01, sequence accession [ AFHO0100000088]
- Phylum Actinobacteria
- Kocuria rhizophila P7-4, sequence accession [ AFID0000000089]
- Streptomyces S4, sequence accession [ CADY0100000090]
- Corynebacterium nuruki S6-4T, sequence accession [ AFIZ0000000091]
- Propionibacterium humerusii, sequence accession [ AFAM00000000.192]
- Strain JDM601, sequence accession [ CP00232993]
- Streptomyces sp. strain Tü6071, sequence accession [ AFHJ0100000094]
- Bifidobacterium breve UCC2003, sequence accession [ CP00030395]
- Propionibacterium acnes, sequence accession [ CP00281596]
- Amycolicicoccus subflavus DQS3-9A1T, sequence accession (chromosome), CP002786 (plasmid pAS9A-1), and CP002787 (plasmid pAS9A-2). [ CP00278897]
- Gordonia neofelifaecis NRRL B-59395, sequence accession [ AEUD0100000098]
- Pseudonocardia dioxanivorans strain CB1190, sequence accession NC_015312-4 and CP002595-7 [99]
- Bifidobacterium longum subsp. longum KACC 91563, sequence accession [ CP002794 to CP002796100]
- Streptomyces cattleya NRRL 8057, sequence accession (chromosome) and FQ859185 (megaplasmid) [ FQ859184101]
- Rhodococcus sp. Strain R04, sequence accession [ AFAQ01000000102]
- Mycobacterium bovis BCG Moreau, sequence accession [103]
- Saccharopolyspora spinosa NRRL 18395, sequence accession [104]
- Mycobacterium tuberculosis CCDC5079, sequence accession [105]
- Mycobacterium tuberculosis CCDC5180, sequence accession [105]
- Amycolatopsis mediterranei S699, sequence accession [ CP002896106]
- Nesterenkonia sp. Strain F, sequence accession [ AFRW01000000107]
- Streptomyces xinghaiensis NRRL T, sequence accession B24674 [ AFRP01000000108]
- Phylum Chlamydiae
- Chlamydophila abortus variant strain LLG, sequence accession [ AFHM01000000109]
- Chlamydia psittaci 6BC, sequence accession (chromosome), CP002586 (plasmid) [ CP002587110]
- Chlamydia psittaci Cal10, sequence accession (draft chromosome and plasmid) [ AEZD00000000110]
- Chlamydia trachomatis, sequence accession [ CP002024111]
- Phylum Spirochaetes
- Spirochaeta thermophila DSM 6192, sequence accession [ CP001698112]
- Brachyspira intermedia, sequence accession (chromosome) and CP002874 (plasmid) [ CP002875113]
- Phylum Fibrobacteres
- Phylum Bacteroidetes
- Porphyromonas gingivalis TDC60, sequence accession [ AP012203114]
- Krokinobacter sp. strain 4H-3-7-5, sequence accession [ CP002528115]
- Lacinutrix sp. strain 5H-3-7-4, sequence accession [ CP002825115]
- Bacterium HQM9, sequence accession [ AFPB00000000116]
- Anaerophaga sp. Strain HS1, sequence accession [ AFSL00000000117]
- Capnocytophaga canimorsus Strain 5, sequence accession [ CP002113118]
- Mesoflavibacter zeaxanthinifaciens strain S86, sequence accession [ AFOE00000000119]
- Phylum Verrucomicrobia
- Phylum Lentisphaerae
- Phylum Thermotogae
- Kosmotoga olearia Strain TBF 19.5.1, sequence accession [ CP001634120]
- Domain Archaea
- "Candidatus Nitrosoarchaeum koreensis" MY1, sequence accession [ AFPU00000000121]
Non-Bacterial genomes
- North-European Cucumber Cucumis sativus L., sequence accession , FI132140-FI136208, GS765762-GS766880 [ GS815969-GS874855122]
- Castor bean Ricinus communis organelle genome, sequence accession (chloroplast), JF937588 (mitochondria) [ HQ874649123]
- Stretch Lagoon Orbivirus Umatilla, sequence accession through HQ842619 [ HQ842628124]
- Atlantic cod Gadus morhua, sequence accession through CAEA01000001 [ CAEA01554869125]
- Potato Solanum tuberosum L., sequence accession through GS025503 [ GS026177126]
- ΦCA82, sequence accession [ HQ264138127]
- Paramecium caudatumreveals mitochondria, sequence accession NC001324 [128]
- bacteriophage IME08, sequence accession [ NC_014260129]
- virus (ILTV), sequence accession HQ_630064 [130]
- Australian kangaroo Macropus eugenii, sequence accession [ ABQO000000000131]
- Aichi virus, sequence accession [ FJ890523132]
- "Candidatus Tremblaya princeps" Strain PCVAL, sequence accession [ CP002918133]
18.
Anusri Tripathi Sudip Kumar Dutta Monalisa Majumdar Lena Dhara Debolina Banerjee Krishnangshu Roy 《Indian journal of microbiology》2012,52(4):557-564
Pathogenic Klebsiella pneumoniae, resistant to beta-lactam and quinolone drugs, is widely recognized as important bacteria causing array of diseases. The resistance property is obtained by acquisition of plasmid encoded blaTEM, blaSHV, blaCTX-M, QNRA, QNRB and QNRS genes. The aim of this study was to document the prevalence and association of these resistant genes in K. pneumoniae infecting patients in India. Approximately 97 and 76.7 % of the 73 K. pneumoniae isolates showed resistance towards beta-lactam and quinolone drugs respectively. Bla genes were detected in 74 % of K. pneumoniae isolates; with prevalence in the following order: blaTEM > blaSHV > blaCTXM. QNR genes were detected in 67 % samples. Chi-square analysis revealed significant association between presence of bla and qnr genes in our study (P value = 0.000125). Sequence analysis of some blaTEM, blaSHV, blaCTX-M and QNRB PCR products revealed presence of blaTEM1 (GenBank accession: ), blaTEM116 ( JN193522 and JN193523), blaSHV11, blaCTXM72 variants ( JN193524) and QNRB1 ( JF523199 and JN193526) in our samples. JN193527相似文献
19.
Xun-Li Xia Guang-Xiao Yang Guang-Yuan He 《Physiology and Molecular Biology of Plants》2009,15(1):99-102
A tandem gene cluster CHS-CHI-IFS (rIFS) for secondary metabolites of plant isoflavones was constructed by using the chalcone synthase (CHS), chalcone isomerase (CHI), and isoflavone synthase (IFS) (GenBank accession numbers , EU526827, EU526829) in a single recombination event with the pET22b vector. The resulting expression vector pET-rIFS was heterogeneously expressed. The highlights of the vector include ease of handling, high efficiency and universal application among diverse plant species. To the best of our knowledge, this is the first attempt at developing a novel method of constructing tandem gene cluster for future research involving secondary metabolism of isoflavones and isoflavones engineering.Key words: EU526830Isoflavones biosynthesis, Novel method, Secondary metabolism, Tandem gene cluster 相似文献
20.
Barbara L. Bernardo Timothy S. Wachtmann Patricia G. Cosgrove Max Kuhn Alan C. Opsahl Kyle M. Judkins Thomas B. Freeman John R. Hadcock Nathan K. LeBrasseur 《PloS one》2010,5(6)