Genetic structure of three Oryza AA genome species (O. rufipogon, O. nivara and O. sativa) as assessed by SSR analysis on the Vientiane Plain of Laos

Microsatellite (SSR) markers can reveal a high level of polymorphic loci, and are increasingly being used in population genetic structure studies. On the Vientiane plain of Laos all components of the rice crop complex exist, wild annual (O. nivara), wild perennial (O. rufipogon) and weedy relatives of rice as well as rice itself. To understand gene flow in the rice complex, the genetic structures of O. rufipogon (10 populations), O. nivara (10 populations) and O. sativa (24 samples) from across the Vientiane Plain, Laos, were compared. Higher genetic differentiation was detected among O. nivara populations (G _ST = 0.77, R _ST = 0.71) than O. rufipogon populations (G _ST = 0.29, R _ST = 0.28), whereas genetic diversity for all populations of these two wild species showed similar values (H _T = 0.77 and 0.64 in O. rufipogon and O. nivara, respectively). Based on neighbor-joining tree constructed on the basis of genetic distance (D _A), three genetic clusters were detected, corresponding to (1) O. sativa samples, (2) O. nivara populations and (3) O. rufipogon populations. Pairwise tests confirmed the genetic differentiation of the three species. Although none of the wild rice individuals used in this study had any cultivated-specific phenotypic traits, genetic admixture analysis detected more than 10% O. sativa membership in three O. rufipogon and one O. nivara populations, indicating that O. sativa alleles may cryptically persist in natural populations of O. rufipogon and O. nivara on the Vientiane Plain.     

崖壁植物太行菊与长裂太行菊全基因组大小及特征分析北大核心CSCD

太行菊(Opisthopappus taihangensis)、长裂太行菊(O.longilobus),为太行山特有多年生崖壁草本植物,菊科(Compositae)重要野生资源,具有较高的经济与生态价值。为确定适合两物种的全基因组测序策略,该研究利用流式细胞法和高通量测序技术,分析两物种基因组大小、杂合率、重复序列及GC含量等信息。结果表明:(1)流式细胞法估算太行菊基因组大小约为2.1 Gb,长裂太行菊基因组大小约为2.4 Gb。(2)高通量测序修正后太行菊基因组大小为3.13 Gb,重复序列比例为84.35%,杂合度为0.99%,GC含量为36.56%;长裂太行菊基因组为3.18 Gb,重复序列比例为83.83%,杂合度为1.17%,GC含量为36.62%。(3)初步组装后GC含量分布及平均深度存在异常,出现分层现象,可能是两物种基因组杂合率较高所致。综上结果表明,太行菊、长裂太行菊均属于高重复、高杂合、大基因组的复杂基因组,建议使用Illumina+PacBio测序组装策略,进行全基因组测序分析。     

Biochemical systematics of two sibling species of polychaete annelids: Ophelia bicornis and O. radiata

Biochemical analysis of polychaete annelids from the English Channel and the Atlantic Coast has shown that they represent two genetically isolated species, Ophelia bicomis and O. radiata, characterized by different alleles at four loci and a mean number of 15 and 14 pairs of gills, respectively. Sampling of Mediterranean annelids was insufficient to determine whether or not the population studied belongs to the O. radiata species.     

Serological and genetic analysis of a rare CisAB01/O01 blood group

The paper aims to analyze a rare blood sample in Ganzhou City Hospital with CisAB subtype and explore a feasible pattern for blood typing of rare blood type patients, so as to ensure clinical transfusion safety. The routine serological methods were used for ABO forward and reverse blood typing and the fluorescence real-time PCR technique was used for sample genotyping. A human ABO blood group 6-7 exon sequencing kit was used for sequence analysis. The nucleic acid sequence of the sample was compared with reference sequences. The forward typing results demonstrated that the sample was ABw, RhD positive. The sample exhibited 4+ agglutination with anti-H and anti-AB antibodies. Reverse typing by microcolumn gel method showed an AB result, but the serum sample demonstrated weak agglutination with B cell under room temperature, 4 °C and 37 °C in saline when tested with tube method respectively. The serological results matched with the A₂B₃ serotype. The fluorescent real-time PCR genotyping results displayed A/O01. The sequence analysis demonstrated deletion of guanine in 261-position 467C>T (heterozygote) and 803G>T (heterozygote) mutation respectively. The mutation caused the A glycosyltransferase peptide chain to change from proline to leucine (P156L) at 156 and from glutamate to alanine (G268A) at 268. The result demonstrated that the sample''s genotype was CisAB01/O01. The mutation of glycosyltransferase coding gene leads to an abnormal serological reaction pattern. Only by combining the results of genetic analysis can we get the true sample blood type and better ensure the safety of clinical blood transfusion.     

帕米尔木灵藓和细齿木灵藓（木灵藓科）的形态特征及其在中国的新分布

该文报道了采自新疆的木灵藓属中国2个新记录种——帕米尔木灵藓(Orthotrichum pamiricum)和细齿木灵藓(O.scanicum)。帕米尔木灵藓的识别特征为:叶尖钝,气孔隐型,多着生于孢蒴下部,外齿层齿片8对,干燥时蒴齿背曲,内齿层蒴条16,上部内曲;细齿木灵藓的识别特征为:叶尖部具细齿,气孔半隐型,蒴帽具分散的透明毛,内齿层和外齿层均16片,具8条黄色细沟,干燥时中部以上具沟。对这2种藓类的形态特征、生境和地理分布及与其相似种的形态学进行了比较分析,并绘制了每种的形态结构墨线图。木灵藓属植物在中国的新分布记录进一步表明,新疆地区富含生物多样性,并与中亚植物区系存在密切关系。     

Flash flooding resistance of rice genotypes of Oryza sativa L., O. glaberrima Steud., and Interspecific hybridization progeny

In the costal area and inland valleys of Guinea, flash floods occur frequently following heavy rain during the rainy season. Young rice seedlings are particularly vulnerable to submergence stress due to insufficient height and carbohydrate reserves. In an attempt to characterize the physiological responses of young seedlings to flash flood, a wide genetic base including O. sativa, O. glaberrima, and interspecific hybridization progenies (IHP) was used.

Twelve day-old seedlings were submerged for 7 days, and plant height, dry matter accumulation (DMA), and lodging were measured. Upland rice (O. sativa) showed greater shoot elongation, larger reduction in DMA during submergence, and higher lodging, which lead to low flash flooding resistance (FFR). The physiological traits of most O. glaberrima and upland rice (O. sativa) to flash flood were opposite to those of submergence tolerant cultivars, as evidenced from the results of a principal component analysis. The physiological response of Saligbeli was different to other O. glaberrima genotypes in terms of FFR. Saligbeli exhibited enhanced shoot elongation with the increase in DMA during submergence. These features seemed to be a unique way to cope with submergence. Some IHP adapted to lowland cultivation showed traits similar to Saligbeli. The vigorous growth of Saligbeli and IHP underwater should be further investigated for improving FFR in rice.     

Characterization of a highly stable trypsin-like proteinase inhibitor from the seeds of Opuntia streptacantha (O. streptacantha Lemaire)

A trypsin inhibitor from Opuntia streptacantha Lemaire (Prickly pear) seeds was purified and characterized. Of several proteases tested, this inhibitor showed specificity to trypsin-like enzymes. The major inhibitor present in these seeds showed distinctive characteristics, most notably a low molecular weight of 4.19 kDa, as determined by MALDI TOF, and an unusually high thermal stability, retaining most of the activity after heating the sample 1 h to 120 °C with a pressure of 1 kg/cm². Its complete amino acid sequence was obtained through mass spectrometry, this establishing presence a blocked N-terminal region. When comparing its sequence in the MEROPS database for peptidases and peptidase inhibitors, it showed 34.48% identity with a serine-proteinase inhibitor from the I15 family.     

Vaccination of sex reversed hybrid tilapia (Oreochromis niloticus × O. aureus) with an inactivated Vibrio vulnificus vaccine

Vibrio vulnificus causes disease in economically important aquaculture raised fish and is an opportunistic human pathogen. This study reports on the isolation of V. vulnificus from diseased hybrid tilapia (Oreochromis niloticus × O. aureus) cultured in a North American water reuse facility. Our objectives were to characterize the isolate using biochemical and molecular methods, develop a disease challenge model, and determine the ability of a formalin inactivated whole-cell vaccine to protect against V. vulnificus. The V. vulnificus isolate recovered was biotype 1, 16S rRNA type B, vcg type C, and vvhA type 2 and caused disease in tilapia held in static salt water (1.5 g/l sea salt). Fish vaccinated with the formalin inactivated whole-cell vaccine responded to vaccination with titers from vaccinated fish ranging from 32 to 64 and titers from non-vaccinated fish ranging from 4 to 8. In two trials, vaccinated tilapia exhibited relative percent survival (RPS) of 73 and 60% following homologous isolate challenge. In two additional trials, vaccinated tilapia exhibited RPS values of up to 88% following challenge with a heterologous isolate; the use of a mineral oil adjuvant enhanced protection. This vaccine may provide an effective means of preventing infections caused by biochemically and genetically diverse V. vulnificus.     

Occurrence of two closely related ricefishes, Javanese medaka (Oryzias javanicus) and Indian medaka (O. dancena) at sites with different salinity in Peninsular Malaysia

Among ricefishes of the genus Oryzias, the Javanese medaka (O. javanicus) and the Indian medaka (O. dancena) are highly adaptable to seawater. Although wide distribution of the two species in the brackish waters of South and South-East Asia has been reported, their habitat preference remains unknown. We surveyed 12 sites in five estuarial areas of the west coast of Peninsular Malaysia from Kuala Gula to Tanjung Piai. Both species were found in all five areas, suggesting their distribution throughout the west coast of Peninsular Malaysia. This is the southernmost-recorded appearance of O. dancena, to the best of our knowledge. However, the habitats of the two species were essentially separated: of the 12 surveyed sites, the species were found in co-existence at only two sites, and one or the other species was found alone at the remaining 10 sites. We compared temperature, salinity, pH, and dissolved oxygen (DO) at the sampling sites and found that the habitat of O. javanicus is with higher salinity and DO. The salinity and DO at the sites of co-existence are near the lowest values found at the O. javanicus-only sites, and the highest values at the O. dancena-only sites. These results suggest that O. javanicus and O. dancena habitats are essentially separated; the former prefers hyperosmotic conditions while the latter prefers hypoosmotic conditions, and the latter may be more tolerant of hypoxia. The two sites of co-existence are points of contact between the species’ separate distribution areas.     

Epipharynx shape as a tool to reveal differentiation patterns between insect sister species: insights from Onthophagus taurus and O. illyricus (Insecta: Coleoptera: Scarabaeidae)

We evaluated the potential of the adult epipharynx to reveal interspecific differentiation patterns in closely related Onthophagus species. Although easy to analyse, this structure has received little attention in Scarabaeidae taxonomy, probably because a qualitative inspection of its shape often does not yield differences between congeneric species. The polyphenic sister species Onthophagus taurus Schreber, 1759 and O. illyricus Scopoli, 1763 were chosen as a case study. They are extremely similar, to the extent that in some cases they cannot be identified unambiguously without the help of biomolecular analysis. In this study, a combination of linear measurements and a landmark-based approach was employed to quantify inter- and intraspecific shape variation in the epipharynx of specimens sampled at the same study site. Our results showed that the epipharynx is a monomorphic structure: its shape does not vary as a function of sex or male phenotype. In males, epipharynx shape does not change with head shape or horn length. The close proximity of the epipharynx to the horns and the synchronous developmental patterns of these two structures suggest that a developmental trade-off may act between them. Despite these predisposing conditions, however, our results suggest that epipharynx size is not subject to costs associated with horn development, and that the trait is highly canalised. Surprisingly, when using geometric morphometrics the epipharynx appears to be a better tool than genitalia for discriminating between the two sister species.     

Ester production in E. coli and C. acetobutylicum

Genetic engineering has improved the product yield of a variety of compounds by overexpressing, inactivating, or introducing new genes in microbial systems. The production of flavor-enhancing ester compounds is an emerging area of heterologous gene expression for desired product yield in Escherichia coli. Isoamyl acetate, butyl acetate, ethyl acetate, and butyl butyrate are reported here to be produced by expressing Saccharomyces cerevisiae genes ATF1 or ATF2 and the strawberry gene SAAT in E. coli when the appropriate substrates are provided. Increasing the concentration of alcohol added to the reaction generally resulted in increased ester production. ATF1 expression was found to produce more isoamyl acetate and butyl acetate than ATF2 expression or SAAT expression in the strains and culture conditions examined. Additionally, SAAT expression resulted in greater isoamyl acetate and butyl acetate production than ATF2 expression. Butyl butyrate is produced by cell-free extracts of E. coli harboring SAAT but not ATF1 or ATF2.     

Quinua and Relatives (Chenopodium sect.Chenopodium subsect.Celluloid)

Traditionally viewed as an Andean grain crop,Chenopodium quinoa Willd. includes domesticated populations that are not Andean, and Andean populations that are not domesticated. Comparative analysis of leaf morphology and allozyme frequencies have demonstrated that Andean populations, both domesticated(quinua) and free-living(ajara), represent an exceptionally homogeneous unit that is well differentiated from allied domesticates of coastal Chile(quingua) and freeliving populations of the Argentine lowlands(C. hircinum). This pattern of relationships indicates that Andean populations represent a monophyletic crop/weed system that has possibly developed through cyclic differentiation (natural vs. human selection) and introgressive hybridization. Relative levels of variation suggest that this complex originated in the southern Andes, possibly from wild types allied withC. hircinum, with subsequent dispersal north to Colombia and south to the Chilean coast. Coastal populations were apparently isolated from post-dispersal differentiation and homogenization that occurred in the Andes. Other data point toward a center of origin in the northern Andes with secondary centers of genetic diversity subsequently developing in the southern Andes and the plains of Argentina. Comparative linkage of South American taxa, all tetraploid, with North American tetraploids of the subsection will eventually clarify this problem. While the possibility of a direct phyletic connection betweenC. quinoa and the Mexican domesticate(C. berlandieri subsp. nuttalliae,) cannot be excluded, available evidence indicates that the latter represents an autonomous lineage that is associated with the basal tetraploid, C. b. subsp.berlandieri, through var.sinuatum, whereas South American taxa show possible affinities to either var. zschackei or var.berlandieri. An extinct domesticate of eastern North America,C. b. subsp.jonesianum, represents either another instance of independent domestication, possibly from subsp. b. var.zschackei, or a northeastern outlier of subsp.nuttalliae.     

两种广西特有报春苣苔属(苦苣苔科)植物传粉生物学研究

通过野外观察和室内试验,对两种广西特有的桂林小花苣苔和阳朔小花苣苔的传粉生物学进行比较研究。结果表明:两种报春苣苔属植物花期从7月底至8月初;单花花期内花粉具有较高的活性,最高可达92.6%和94.5%;柱头可授性最高时可达90%和95%;花粉/胚珠比率(P/O)分别为110.28±17.45和229.65±18.00;柱头与花药之间存在着空间隔离,可防止自花授粉;在单花花冠裂片张开后第3天,花药开始散粉,但雌蕊在花朵刚开始开放时已伸长,待第3天时柱头已伸长到位于花冠筒口部,高于花药,便于接受异花花粉;该两种植物均不存在无融合生殖现象;两种报春巨苔属植物均高度自交亲和,但很难发生自发的自花授粉,必须依靠外力,因此传粉媒介对于结实率有重要影响,自然条件下基本不发生自花授粉;在自然状态下结实率明显低于两种人工授粉的结实率;小蜂和淡脉隧蜂是目前已知仅见的两种传粉者。