一株牛源都柏林沙门氏菌的全基因组测序及毒力与耐药性分析

【背景】沙门氏菌(Salmonella spp.)是重要的人畜共患病原菌,其毒力和耐药性的不断增强引起广泛关注。【目的】了解从通辽市一犊牛死亡病例中所分离牛源都柏林沙门氏菌的毒力及耐药性情况。【方法】以病死犊牛肺脏为材料,经细菌分离纯化及16S rRNA基因测序,鉴定病原为沙门氏菌。采用动物试验、药敏试验和PCR方法对分离菌进行毒力、耐药性,以及毒力基因和耐药基因检测,并对其进行全基因组测序分析。【结果】分离菌具有较强毒力,对小鼠半数致死量为2.8×10⁶ CFU/mL。分离菌为多重耐药菌,仅对多粘菌素B和噻孢霉素敏感,对强力霉素和恩诺沙星中度敏感。检测13种沙门氏菌常见毒力基因,检出率为92.3%。对分离菌进行全基因组测序分析,该菌株为都柏林沙门氏菌,基因组大小为4 965 370 bp,GC含量为52.12%,同时携带2个质粒,大小分别为79 524 bp (pTLS-1)和45 301 bp (pTLS-2)。分离菌中共携带996个毒力基因和24个毒力岛;共携带42个耐药基因,其中4个为可水平转移基因,基因组中存在9个可移动遗传元件,包括插入序列和转座子等。【结论】分离牛源都柏林沙门氏菌菌株具有较强毒力且为多重耐药株,携带大量毒力基因及耐药基因。     

宋内志贺氏菌1173质粒基因组及耐药基因转移机制

【目的】研究质粒介导宋内志贺氏菌1173耐药基因bla_(CTX-M-64)转移的机制。【方法】用双纸片协同扩散法验证1173是否产超广谱β-内酰胺酶(ESBL),用PCR扩增鉴定其携带的耐药基因,接合转移实验检验其耐药质粒是否可通过接合转移给其他细菌,并对接合子是否产ESBL和携带耐药基因进行检验,利用VITEK~?2检测1173和接合子的耐药谱,提取质粒进行高通量基因组测序,并对质粒序列进行生物信息学分析,以研究其耐药基因转移机制。【结果】1173是产ESBL的多药耐药宋内志贺氏菌,携带的耐药基因有bla _(CTX-M-64)和bla _(TEM),其中的bla _(CTX-M-64)可通过接合转移作用传递给受体菌EC600,并使接合子具有相应的耐药谱。经序列测定和生物信息学分析表明,介导bla _(CTX-M-64)水平转移的是ISEcp1-bla_(CTX-M-64)-Δorf477转座单元。【结论】质粒携带的bla_(CTX-M-64)介导1173对多类抗菌药物的耐药,ISEcp1-bla_(CTX-M-64)-Δorf477转座单元介导bla_(CTX-M-64)在细菌间的转移。     

沙门菌的耐药性机制研究进展

自上世纪末期沙门菌耐药菌株的逐渐增多,特别是多重耐药菌株的出现,给沙门菌病治疗带来了极大困难,成为公共健康的一大威胁。目前关于沙门菌耐药性机制,国内外已有较多研究报道,主要集中于以下几个方面:①拓扑异构酶基因的突变;②抗菌药物摄取或累积量降低;③可转移遗传元件介导的耐药性机制;④质粒介导的喹诺酮类药物耐药性(Plasmid-mediated quinolone resistance,PMQR)。本文着重综述上述几种沙门菌耐药性机制研究进展。     

鸡肉源沙门氏菌对喹诺酮和氟喹诺酮类抗生素耐药状况及相关基因

【目的】研究分离于陕西、河南、四川和北京四省(市)鸡肉源沙门氏菌对喹诺酮和部分氟喹诺酮类抗生素的药敏性及相关耐药基因,更好地了解耐药性的产生和传播途径,确保食品安全。【方法】用琼脂稀释法测定沙门氏菌的药敏性,用PCR和基因序列测定法确定耐药沙门氏菌中与(氟)喹诺酮类抗生素耐药相关的喹诺酮类抗性决定区基因突变及质粒携带的耐药基因。【结果】390株沙门氏菌中,63.59%的菌株对萘啶酮酸产生抗性,21.28%、16.67%和14.62%的菌株分别对环丙沙星、左氧氟沙星和加替沙星产生抗性。248株萘啶酮酸抗性菌中,aac(6’)-Ib-cr、qnrA、qnrB和qnrS基因的检出率分别为20.16%、10.89%、10.08%和1.61%。83株耐环丙沙星的菌株中,gyrA和parC基因的点突变共199个;其中gyrA基因中以Ser83Phe和Asp87Gly双突变最为常见,其次分别为Ser83Phe和Asp87Asn双突变、Ser83Tyr、Ser83Phe、Asp87Gly;parC基因的65个点突变均为Ser80Arg突变。【结论】四省市中鸡肉源沙门氏菌耐药状况严重,其解旋酶和拓扑异构酶基因突变及质粒携带的耐药基因是导致沙门氏菌耐药的重要机制。     

污水厂产超广谱β内酰胺酶大肠杆菌通过接合水平传递耐药性

【目的】研究废水中产超广谱β-内酰胺酶大肠杆菌中可移动质粒在耐药基因水平传播机制中的作用。【方法】对污水厂分离所得的50株产ESBLs大肠杆菌进行接合试验,并对所得的接合子采用纸片扩散法测定其对15种常见药物的耐药表型,针对质粒介导的产ESBLs菌株的耐药基因设计7对特异性引物对接合子进行PCR扩增。【结果】研究结果显示,80份水样分离得50株产ESBLs大肠杆菌,共接合成功35株细菌,接合成功率高达70%。接合子与供体菌相比,均发生耐药谱型的改变,且存在丢失一种或几种药物耐药性且产生另一种或几种药物耐药性的现象。PCR扩增结果显示,接合子与供体菌相比,耐药基因型有所减少或不变,bla_(TEM)、bla_(CTX-M)基因全部接合成功,bla_(SHV)基因仅1株未接合成功,耐氟喹诺酮类基因未发生转移。【结论】本研究表明,不同的耐药基因可能位于不同的可移动质粒上,可移动质粒在大肠杆菌耐药性水平传播的过程中起到了十分重要的作用。     

嗜水气单胞菌对喹诺酮类药物耐药的分子机制

摘要:【目的】调查从浙、苏、皖等地水产动物中分离的23 株致病性嗜水气单胞菌的耐药谱并探索喹诺酮类抗生素耐药菌株的耐药分子机制。【方法】根据美国临床实验室标准化协会药敏判断标准(2011 版)测定23株嗜水气单胞菌耐药谱并筛选喹诺酮类抗生素耐药株;对筛选的耐药菌株和体外诱导耐药菌株的gyrA和parC基因耐药决定区进行分析;用二倍稀释法测定加入多重耐药外排泵抑制剂碳酰氰基-对-氯苯腙前后耐药菌株对恩诺沙星最小抑菌浓度的变化,同时检测喹诺酮类药物相关的外排泵基因qepA、oqxA和mdfA;并检测质粒介导的喹诺酮耐药的qnr家族基因qnrA、qnrB、qnrC、qnrD和qnrS。【结果】所有菌株都存在对5种以上药物的耐药性;39.1%(9/23)的嗜水气单胞菌对喹诺酮类药物耐药,其中55.6%(5/9)对恩诺沙星耐药。耐恩诺沙星的5株菌株均携带qnrS,而不携带qnrA、qnrB、qnrC、qnrD基因,也不携带外排泵基因qepA、oqxA和mdfA。其中耐药菌株AH19同时存在gyrA与parC基因双突变、质粒介导的耐药基因qnrS和主动外排泵三种耐药机制,菌株AH4、AH7和AH20存在gyrA与parC基因双突变和质粒介导的耐药基因qnrS两种耐药机制,AH6存在gyrA基因突变和质粒介导的耐药基因qnrS机制,体外诱导耐药菌株ATCC7966-QR相对于原始菌株ATCC7966发生了gyrA与parC基因双突变。【结论】喹诺酮类药物作用靶位的改变和质粒介导的耐药基因qnrS的存在是本研究中涉及的嗜水气单胞菌对喹诺酮类药物耐药的主要作用机制,主动外排泵机制是个别菌株存在的耐药机制。     

嗜水气单胞菌对喹诺酮类药物耐药的分子机制

【目的】调查从浙、苏、皖等地水产动物中分离的23株致病性嗜水气单胞菌的耐药谱并探索喹诺酮类抗生素耐药菌株的耐药分子机制。【方法】根据美国临床实验室标准化协会药敏判断标准(2011版)测定23株嗜水气单胞菌耐药谱并筛选喹诺酮类抗生素耐药株;对筛选的耐药菌株和体外诱导耐药菌株的gyrA和parC基因耐药决定区进行分析;用二倍稀释法测定加入多重耐药外排泵抑制剂碳酰氰基-对-氯苯腙前后耐药菌株对恩诺沙星最小抑菌浓度的变化,同时检测喹诺酮类药物相关的外排泵基因qepA、oqxA和mdfA;并检测质粒介导的喹诺酮耐药的qnr家族基因qnrA、qnrB、qnrC、qnrD和qnrS。【结果】所有菌株都存在对5种以上药物的耐药性;39.1%(9/23)的嗜水气单胞菌对喹诺酮类药物耐药,其中55.6%(5/9)对恩诺沙星耐药。耐恩诺沙星的5株菌株均携带qnrS,而不携带qnrA、qnrB、qnrC、qnrD基因,也不携带外排泵基因qepA、oqxA和mdfA。其中耐药菌株AH19同时存在gyrA与parC基因双突变、质粒介导的耐药基因qnrS和主动外排泵三种耐药机制,菌株AH4、AH7和AH20存在gyrA与parC基因双突变和质粒介导的耐药基因qnrS两种耐药机制,AH6存在gyrA基因突变和质粒介导的耐药基因qnrS机制,体外诱导耐药菌株ATCC7966-QR相对于原始菌株ATCC7966发生了gyrA与parC基因双突变。【结论】喹诺酮类药物作用靶位的改变和质粒介导的耐药基因qnrS的存在是本研究中涉及的嗜水气单胞菌对喹诺酮类药物耐药的主要作用机制,主动外排泵机制是个别菌株存在的耐药机制。     

通辽地区犊牛腹泻大肠杆菌耐药性检测及一株多重耐药菌全基因组测序分析

【背景】大肠杆菌(Escherichia coli)是引起犊牛腹泻的最主要病原菌,其耐药性菌株的不断出现引起广泛关注。【目的】了解内蒙古自治区通辽市犊牛腹泻大肠杆菌耐药性及耐药基因流行情况。【方法】从通辽市多个旗县采集犊牛腹泻样品40份,经细菌分离纯化及16S rRNA基因测序,最终鉴定出20株大肠杆菌。采用药敏试验和PCR方法对分离菌进行耐药性及耐药基因检测分析,并对其中1株多重耐药菌株进行全基因组测序。【结果】20株分离菌均具有多重耐药性,对链霉素、环丙沙星、恩诺沙星和复方新诺明的耐药率达80%以上。所检耐药基因中,aphA1、strB、TEM-1和qnrS检出率达100%。通过对代表性菌株TL-13全基因组测序发现,其基因组大小为4897185bp,GC含量为50.68%,同时携带2个质粒,大小分别为108288bp(pTL13-1)和64018bp(pTL13-2)。质粒中共携带18个可移动耐药基因。【结论】通辽地区犊牛腹泻大肠杆菌多重耐药性普遍存在,4种常见耐药基因普遍流行。     

食源性沙门氏菌耐药性及质粒介导喹诺酮耐药基因检测

随机采集的638份食品样品中沙门氏菌总检出率为9.7%(n=62株),共检出16种不同的血清型,其中最常见的为鸭沙门氏菌。受试菌株对磺胺甲基异噁唑、复方新诺明、链霉素和环丙沙星的耐药率较高。16株耐环丙沙星沙门氏菌按GyrA和ParC喹诺酮耐药决定区(QRDR)不同氨基酸替代组合可分为5种突变型,其中GyrA亚基发生Ser83Phe和Asp87Gly变异,同时ParC亚基发生Ser80Arg变异为最常见的突变类型。62株食源性沙门氏菌中,qnr基因阳性的菌株共7株,占受试菌株的11.3%。qnrA和qnrS基因阳性菌株分别有2株和5株,没有菌株携带qnrB、qnrC和qnrD基因。aac(6')-Ib基因阳性菌株共有8株,其中3株经确认为携带其变体基因aac(6')-Ib-cr。结果表明,新乡市食源性沙门氏菌血清型分布呈多样性,耐药状况较为严重,并且一些菌株携带质粒介导喹诺酮耐药(PMQR)基因。     

产超广谱β-内酰胺酶大肠埃希菌的耐药性分析

目的:了解产超广谱β-内酰胺酶大肠埃希菌在泌尿系统感染中的流行情况及对12种常用抗菌药物的耐药性,为临床合理使用抗生素提供必要依据.方法:采用K-B纸片扩散法,测定128株大肠埃希菌对12种抗菌药物的耐药性,同时使用E-test方法筛选超广谱β-内酰胺酶阳性菌株.结果:从128株大肠埃希菌中共检出ESBL 26株,产ESBL细菌阳性率为20.3%.在12种抗菌药物中,亚胺培南的体外抗菌活性最好,敏感率为100%,其次为阿米卡星(90.5%).结论:产ESBL细菌多重耐药现象严重,只有正确使用抗生素才能降低ESBL的发生,而对于产ESBL菌株感染的治疗,亚胺培南应作为首选药物.     

Origin and development of Tool-making behavior in Africa and Asia

Around two-and-a-half million years ago, some hominid populations in Africa began to modify stones and bones in a manner that can be recognized by prehistorians as artifacts, and, by definition, produced the earliest identifiable archaeological record. It is likely that earlier hominid groups also may have had relatively rich tool-using behavioral repertoires similar to that seen in modern chimpanzees (McGrew, 1992), such tools may have been made of perishable materials or minimally modified and thus difficult to identify. This review will focus on the earliest archaeological traces and the spread of hominids out of Africa and into Eurasia.     

The spatial and temporal distribution of predatory and phytophagous mites in field-grown strawberry in the UK

Extensive sampling of strawberry plants in everbearing and June-bearing strawberry plantations and on potted plants showed that different species of mites were spatially separated. Of the two phytophagous species recorded, Tetranychus urticae was most abundant on old leaves and Phytonemus pallidus on folded leaves and flower/fruit clusters. Predatory phytoseiid mites were found on all plant parts but different species were spatially separated; Neoseiulus cucumeris and N. aurescens were found mostly on folded leaves and clusters, and N. californicus and Phytoseiulus persimilis on old and medium aged leaves. No Typhlodromus pyri were found in the field plantations. These patterns of distribution did not change over sampling dates in summer and early autumn. An understanding of this within-plant zonation of mite species is important when studying predator–prey interactions and when designing sampling strategies for strawberry. A programme to sample the entire mite system on strawberry should be stratified to include all the above mentioned parts of the plant. Different sampling protocols, as appropriate, are required for sampling different pest species and their associated predators.     

Fungi in bathwater and sludge of bathroom drainpipes

Samples of bathwater from 14 homes and 22 public bathhouses and sludge in drainpipes from 19 house-hold bathrooms were plated out onto potato dextrose agar supplemented with chloramphenicol. Several media were used to study colony morphology of the isolates and the thermotolerance and alkaline tolerance of each isolate were examined.Eleven sludge samples produced 12 isolates of Exophiala jeanselmei, 2 of E. dermatitidis and 1 of E. moniliae. Five household bathwater samples produced 2 isolates of E. jeanselmei, 4 of E. dermatitidis and 1 of E. alcalophila. One isolate of E. jeanselmei, 2 of E. dermatitidis, 3 of E. moniliae and 2 of unidentified Exophiala species were recovered from 6 samples of the bathwater dissolving Chinese medicine in the bathtubs of public bathhouses. One isolate of E. jeanselmei was recovered from the 15 samples of bathwater from public bathhouses. Bathwater and sludge in bathroom drainpipes may be an important habitat of Exophiala species.     

Occurrence of ochratoxin A and ochratoxigenic mycoflora in corn and corn based foods and feeds in some South American countries

Cereals and cereal- derived products constitute the base of human and animal feeding in South American countries. This review attempts to give an overview of the ochratoxin A (OTA) occurrence and potential sources of OTA contamination in those products. The environmental conditions as humidity and temperature in the colonization of the substrates by Aspergillus section Nigri isolated from corn kernels were also discussed. The available information on the ochratoxigenic mycoflora and OTA presence in corn, corn based food and feed is limited. Only few surveys have been carried out in Argentina, Ecuador and Brazil; which showed that Aspergillus niger aggregate and A. ochraceus species would be the main source of OTA. It’s possible to emphasize that, the species A. carbonarius has not been isolated from these substrates and Penicillium verrucosum was isolated only from pig feeds of Argentinean samples in low percentage. Studies about the ecophysiology of ochratoxigenic fungi and OTA occurrence are in progress in Latin America to reduce the impact of this toxin in the food chain. Carina E. Magnoli, Stella M. Chiacchiera, Ana M. Dalcero—Members of the Research Career Andrea L. Astoreca—Fellowship of CONICET     

Development and function of Pisolithus and Scleroderma ectomycorrhizas formed in vivo with Allocasuarina,Casuarina and Eucalyptus

The effect of inoculating seedlings of Eucalyptus grandis, Allocasuarina littoralis and Casuarina equisetifolia with two isolates of Pisolithus and two isolates of Scleroderma from under eucalypts was examined in a glasshouse trial. Ectomycorrhizas formed extensively on Eucalyptus (23–46% fine roots ectomycorrhizal) and Allocasuarina (18–51% fine roots ectomycorrhizal). On Casuarina, the fungi were either unable to colonize the rhizosphere (one isolate of Pisolithus), or sheathed roots, resembling ectomycorrhizas, formed on 1–2% of the fine roots. Colonization of roots by one isolate of Scleroderma resulted in the death of Casuarina seedlings. Inoculation with fungi increased shoot dry weight by up to a factor of 32 (Eucalyptus), 4 (Allocasuarina) and 3 (Casuarina). Ectomycorrhizas formed in associations with Eucalyptus and Allocasuarina had fully differentiated mantles and Hartig nets in which the host and fungal cells were linked by an extensive fibrillar matrix. Sheathed roots in Casuarina lacked a Hartig net, and the epidermis showed a hypersensitive reaction resulting in wall thickening and cell death. The sheaths are described as mantles since the density and arrangement of the hyphae in the sheaths was similar to that in mantles of the eucalypt ectomycorrhizas. The intercellular carbohydrate matrix was not produced in the Casuarina mantle in association with Pisolithus, hence the mantle was not cemented to the root. These structures differ from poorly compatible associations described previously for Pisolithus and Eucalyptus. The anatomical data indicate that ectomycorrhizal assessment based on surface morphological features may be misleading in ecological studies because compatible and incompatible associations may not be distinguishable.     

Campylobacter,salmonella and chlamydia in free-living birds of Croatia

Campylobacteriosis, salmonellosis and avian chlamydiosis are zoonotic diseases in which birds have been suggested to play an important role as reservoirs. We have investigated the prevalence of Campylobacter and Salmonella spp. and Chlamydophila sp. in 107 free-living birds belonging to 25 species from 13 families from Croatia in order to examine the natural infections caused by these agents. Campylobacter jejuni-like organisms were isolated from 2 of 107 free-living bird species examined (1.9%). Salmonella was isolated from 8 fresh fecal specimens from free-living bird species (7.4%). These isolates were identified as S. typhimurium in 4 (3.7%), and S. enteriditis in 4 (3.7%) free-living birds. These samples originated from feral pigeons (Columba livia domesticus; n=14; 28.6%), rook (Corvus frugilegus; n=13; 15.4%), buzzard (Buteo buteo; n=12; 16.7%), black-headed gull (Larus ridibundus; n=8; 12.5%) and tawny owl (Strix aluco; n=8; 12.5%). The presence of Chlamydophila sp. was not detected in the free-living birds examined during this study. Epidemiological aspects and possible significance of the examined birds as a source of infections for domestic animals and humans are discussed.     

Diversity and structure of shrew communities in montane forests of southeast Kenya

As a step towards setting conservation priorities for declining moist forests in southeast Kenya, we assessed for small mammal diversity and distribution. These habitats are under severe pressure due to increased demand an forests products and arable land, yet there is a dearth of information an impacts an biodiversity. Over an eight-month period, we used a combination of box and pitfall traps with drift fences to study 13 forest fragments in five geographic areas ranging between 3°28′−4°10′ S and 38°28′−39°2b′ E. We recorded 12 species including 10 soricids and two macroscelids in 31440 trap nights. Diversity estimates using rarefaction method indicate a species richness of 12, consistent with our collection. There were six unique species, each limited in distribution to one forest fragment. Our record of Crocidura cf. selina in Kyulu Hills is the first outside Mabira forest in Uganda where it is considered endemic and endangered. We also report the first record of C. fuscomurina in Kenya, white those of C. Luna and Suncus megalura are first in the southeast of the country. By providing new ranges to four species, our study is of significance to the biogeography and conservation of forest small mammals in the region.     

Changes in phosphorus concentrations and pH in the rhizosphere of some agroforestry and crop species

The aim of this work was to assess whether agroforestry species have the ability to acquire P from pools unavailable to maize. Tithonia diversifolia(Hemsley) A. Gray, Tephrosia vogelii Hook f., Zea mays and Lupinus albusL. were grown in rhizopots and pH change and depletion of inorganic and organic P pools measured in the rhizosphere. Plants were harvested at the same growth stage, after 56 days for maize and white lupin and 70 days for tithonia and tephrosia, and the rhizosphere sampled. The rhizosphere was acidified by tithonia (pH change –0.3 units to pH 4.8) and lupins (–0.2 units to 4.9), alkalinised by tephrosia (+0.4 units to pH 5.4), and remained unchanged with maize growth. Concurrent with acidification in the rhizosphere of tithonia there was a decline in resin-P (0.8 g P g^–1). However, there was also a decline in NaOH extractable inorganic P (NaOH-P_i) (5.6 g P g^–1 at the root surface) and organic P pools (NaOH-P_o) (15.4 g P g^–1 at 1.5 mm from the root), which would not be expected without specific P acquisition mechanisms. Alkalinisation of tephrosia rhizosphere was accompanied by changes in all measured pools, although the large depletion of organic P (21.6 g P g^–1 at 5 mm from the root) suggests that mineralisation, as well as desorption of organic P, was stimulated. The size of changes of both pH and P pools varied with distance away from the rhizoplane. Decline of more recalcitrant P pools with the growth of the agroforestry species contrasted with the effect of maize growth, which was negligible on resin-P and NaOH-P_i, but led to an accumulation of P as NaOH-P_o (14.2 g P g^–1 at 5 mm from the root). Overall the depletion of recalcitrant P pools, particularly P_o, suggests that the growth of tithonia and tephrosia enhance desorption and dissolution of P, while also enhancing organic P mineralisation. Both species appear to have potential for agroforestry technologies designed to enhance the availability of P to crops, at least in the short term.