Profiling Planctomycetales diversity with reference to anammox‐related bacteria in a South China Sea,deep‐sea sediment     

Qinglong Shu  Nianzhi Jiao 《Marine Ecology》2008,29(4):413-420

A systematic assessment of Planctomycetales diversity in a South China Sea, deep‐sea sediment (1657 m) was conducted using the 16S rRNA gene analysis approach. PCR amplification of the samples from seven sediment layers (0.1, 1, 3, 5, 7, 9 and 11 m below the surface sediment) using the primer set Pla‐46‐F/1392‐R showed that the Planctomycetales existed within a limited range of sediment depths (≤ 5 m), and had a decreasing trend in diversity with increasing depth. The majority of the retrieved Pla‐46‐F/1392‐R sequences belonged to Pirellula‐related Planctomycetales, and two sequences retrieved from the 0.1‐m layer (GenBank accession numbers: DQ996944 and DQ996945 ) shared the same anammox‐related signature oligonucleotides and were closely related to commonly recognized anammox organisms. To identify new anammox‐related biomarkers, three primer sets were designed for amplifying the fragments of hydroxylamine oxidoreductase and S‐adenosylmethionine radical enzyme genes, but no related sequences were found. Our multiple 16S rRNA gene primer sets (Journal of Rapid Methods and Automation in Microbiology, 2008, in press) revealed even an higher diversity of Planctomycetales in the 0.1‐m layer of the sediment, especially at genus level. Our data profiled the distribution pattern of Planctomycetales diversity along sediment depths, and provided molecular evidence for the existence of anammox‐related bacteria in a new location, which broadens our understanding of Planctomycetales diversity in deep sea sediments.  相似文献   

Distribution of general aerobic heterotrophic bacteria in sediment core taken from the Canadian basin and the Chukchi Sea     

高爱国  陈皓文 《极地研究(英文版)》2008,19(1):14-22

The occurrence percentage and abundance of General Aerobic Hetero- trophic Bacteria （GAB） were determined by using the method of MPN for 182 sub- samples from 10 sediment cores taken from the Canadian basin and the Chukchi Sea at two different culturing temperatures. The results showed that the general occurrence percentage of GAB was quite high, average abundanees of GAB at cultured temperatares of 4℃ and 25℃ were 4.46 ×10^7 and 5.47×10^7 cells·g^-1（wt）, respectively. The highest abundance of GAB occurred at 20 -22 cm section in the sediment. GAB abundances changed among the section of sediments, but there is a trend ： the a-bundances at the middle or lower sections were lower than those at upper section. Cultivation at 25℃ could improve the occurrence percentage and abundances of GAB, which suggests that the increasing of temperature may change the living circum-stances of GAB. The differences of GAB among the latitudes areas indicated that occurrence percentage and abundances of GAB in middle latitude areas were higher than those in the higher or lower latitude areas, and were more obvious at 4℃ than those at 25℃. The GAB abundances in sediment under the shallower water seemed to be low- er than those in sediments under the deeper water and this status was more obvious at 25℃ than that at 4℃.  相似文献   

Faecal indicator bacteria in New Zealand freshwater fish: a pilot study     

Sarah Coxon  Jon S Harding  Brent Gilpin 《新西兰海洋与淡水研究杂志》2019,53(3):470-479

Recent studies have suggested that poikilothermic animals, such as fish, may represent a previously overlooked source of the faecal indicator bacteria (FIB) used for the assessment of water quality. However, quantitative studies of FIB in poikilotherms are scarce. We investigated the presence of FIB in the faeces of five freshwater fish species. E. coli and enterococci were detected in 71 and 76% of faecal samples, respectively. Concentrations were highly variable, with maximum concentrations (2.1?×?10⁴ E. coli and 1.3?×?10⁶ enterococci per gram of faecal material) up to four orders of magnitude higher than present in the water column. FIB were not detected in faecal samples from marine fish. Our findings suggest that FIB ingested from the environment may be capable of replication within the fish gut, making fish a potential source and transport mechanism for FIB in New Zealand freshwaters. This may have implications for water quality monitoring.  相似文献   

基于高通量测序方法分析荣成月湖潮间带趋磁细菌多样性     

张文燕  潘红苗  董逸  杜海舰  陈一然  吴龙飞  肖天 《海洋科学》2019,43(3):1-10

荣成月湖是一个典型天然潟湖,潮间带沉积物中存在多种形态趋磁细菌。通过Roche454高通量测序平台,对沉积物样品(B_S)和磁收样品(B_M)进行16SrRNA基因高通量测序,认识荣成潮间带沉积物的细菌群落结构,并了解趋磁细菌多样性及系统进化地位。研究结果表明沉积物样品中主要的细菌类群为δ-变形菌纲,占总细菌数的26.4%,其次是γ-变形菌纲和α-变形菌纲;而磁收样品中细菌多样性和种类明显降低,以α-变形菌纲占绝对优势,相对比例达72.6%。在磁收样品和沉积物样品分别发现了1 612条和186条reads与趋磁细菌相关,分别占细菌总数的5.76%和0.85%,磁收样品中趋磁细菌数是沉积物样品的6.8倍。对两个样品中获得的趋磁细菌序列进行系统进化分析,发现这些序列多数属于变形菌门的α-变形菌纲,以趋磁球菌占绝对优势,少数属于δ-变形菌纲,与多细胞趋磁原核生物亲缘关系最近。海洋趋磁螺菌属仅在B_M样品中检出,趋磁弧菌属在B_M样品优势度高于B_S样品,而多细胞趋磁原核生物和趋磁螺菌属在B_S样品中优势度更高。通过分析样品间的差异OTUs,认为荣成潮间带沉积物中可能存在大量未知的趋磁细菌新类群。研究结果为下一步培养和开发趋磁细菌这一功能菌群,发现趋磁细菌新类群及趋磁细菌生态功能提供了基础资料。  相似文献   

A study of crude oil‐degrading bacteria from mangrove forests in the Persian Gulf     

Iman Fakhrzadegan  Mehdi Hassanshahian  Majid Askari Hesni  Amir Saadatfar 《Marine Ecology》2019,40(2)

Mangroves are coastal ecosystems, found in tropical and subtropical regions around the world. They are found in the transitional zones between land, sea, and rivers. Petroleum hydrocarbons are the most common environmental pollutants, and oil spills pose a great hazard to mangroves forests. This research was focused on the isolation and characterization of crude oil‐degrading bacteria from mangrove ecosystems at the Persian Gulf. Sixty‐one crude oil‐degrading bacteria were isolated from mangrove samples (plant, sediment, and seawater) that enriched in ONR7a medium with crude oil as only carbon source. Some screening tests such as growth at high concentration of crude oil, bioemulsifier production, and surface hydrophobicity were done to select the most efficient strains for crude oil degradation. Molecular identification of strains was carried out by amplification of the 16S rRNA gene by PCR. The results of this study were indicated that the quantity of crude oil‐degrading bacteria was higher in the root of mangrove plants compare to other mangrove samples (sediment and seawater). Also, identification results confirmed that these isolated strains belong to Vibrio sp. strain NW4, Idiomarina sp. strain BW32, Kangiella sp. strain DP40, Marinobacter sp. strain DW44, Halomonas sp. strain BS53, and Vibrio sp. strain DS35. The application of bioremediation strategies with these bacteria can reduce crude oil pollution in this important marine environment.  相似文献   

胶州湾沉积物中石油降解菌的降解能力及多样性研究     

高伟  高祥兴  米铁柱  韩彬  张毅然  李馨子  尹晓斐  孙承君  李倩  崔志松  栾晓  于志刚  郑立 《海洋学报(英文版)》2019,38(6):54-64

2013年青岛输油管道爆炸,大量石油污染了附近海岸。课题组采集了污染的沉积物样品,以原油为唯一碳源和能源,富集了四个石油降解菌群。生物多样性和群落分析表明,Luteibacter、Parvibaculum 和属于食烷菌科的一个属是降解菌群的主要优势菌,都属于变形菌门。从石油降解菌群中分离筛选,获得了9株具有不同16S rRNA基因序列的降解菌,分别属于8个属。重量法测定降解菌的石油降解率,其中5株的石油降解率大于30%。GC-MS分析结果表明,石油降解菌多倾向于降解烷烃,对多环芳烃的降解能力较差,其中5株细菌的烷烃降解率较大,仅1株菌D2对多环芳烃的降解率较大,其降解率在34.9%到77.5%。通过对高通量数据的分析,表明食烷菌属是菌群A和菌群E的主要降解菌群,其中筛选获得的菌株E4可能是菌群E的一株优势降解菌。本研究所筛选菌株证明了其石油降解潜力,为油污染海滩生物修复提供了菌株资源。  相似文献   

南海沉积物细菌胞外蛋白酶在家族水平上的多样性   总被引：2，自引：0，他引：2  

杨金玉  冯阳阳  陈秀兰  解彬彬  张玉忠  石梅  张熙颖 《海洋学报(英文版)》2019,38(12):73-83

海洋产蛋白酶细菌及其分泌的胞外蛋白酶在降解有机氮以推动海洋氮循环进行方面发挥着重要作用,但目前对这二者多样性的认识非常有限。本研究自南海沉积物中筛选得到90株产蛋白酶细菌,并通过N-端氨基酸序列,分析了其胞外蛋白酶在家族水平上的多样性。16S rRNA基因序列分析的结果表明,筛选的产蛋白酶细菌均属于Gammaproteobacteria纲,且大多数属于Alteromonadales目和Vibrionales目的不同属。对其中14株菌株的14个胞外蛋白酶的N-端氨基酸序列分析表明,所有这些蛋白酶属于金属蛋白酶的M4家族或丝氨酸蛋白酶的S8家族。本研究提供了海洋沉积物产蛋白酶细菌在类群及其胞外蛋白酶在类型上的新细节,这将有助于全面了解微生物酶促降解海洋沉积物有机氮的过程和机理。  相似文献   

用于海洋沉积物中厌氧氨氧化细菌分子生态学研究的引物比较     

付璐璐  李思琦  甄毓  米铁柱 《中国海洋大学学报(自然科学版)》2019,(9):77-88

为比较厌氧氨氧化细菌16SrRNA基因的2对特异性引物(Amx368F/Amx820R、Brod541F/Amx820R)在其分子生态学研究方面的优点与不足,本研究采用高通量测序和qPCR技术对长江口及其邻近海域沉积物中厌氧氨氧化细菌细菌的群落组成、多样性和丰度进行比较分析,结果表明,引物Amx368F/Amx820R特异性较高,能够较为完整地反映沉积物中厌氧氨氧化细菌的多样性信息,且其覆盖的厌氧氨氧化细菌丰度与功能基因hzo丰度正相关(P<0.01);而引物Brod541F/Amx820R特异性较低,覆盖部分厌氧氨氧化细菌及其他多个门的细菌,其量化的厌氧氨氧化细菌与功能基因hzo丰度无明显相关关系(P>0.05)。因此,引物Amx368F/Amx820R能够更加真实地反映厌氧氨氧化细菌在海洋沉积物中的群落特征,在其分子生态学研究中更具优势。  相似文献   

Contribution of trimethylamine N-oxide on the growth and pressure tolerance of deep-sea bacteria     

YIN Qunjian  ZHANG Weijia  LI Xuegong  ZHOU Lihong  QI Xiaoqing  ZHANG Chan  WU Long-Fei 《海洋湖沼学报（英文）》2019,(1):210-222

Trimethylamine N-oxide(TMAO) is widely dispersed in marine environments and plays an important role in the biogeochemical cycle of nitrogen. Diverse marine bacteria utilize TMAO as carbon and nitrogen sources or as electron acceptor in anaerobic respiration. Alteration of respiratory component according to the pressure is a common trait of deep-sea bacteria. Deep-sea bacteria from dif ferent genera harbor high hydrostatic pressure(HHP) inducible TMAO reductases that are assumed to be constitutively expressed in the deep-sea piezosphere and facilitating quick reaction to TMAO released from ?sh which is a potential nutrient for bacterial growth. However, whether deep-sea bacteria universally employ this strategy remains unknown. In this study, 237 bacterial strains affliated to 23 genera of Proteobacteria,Bacteroidetes, Firmicutes and Actinobacteria were isolated from seawater, sediment or amphipods collected at dif ferent depths. The pressure tolerance and the utilization of TMAO were examined in 74 strains. The results demonstrated no apparent correlation between the depth where the bacteria inhabit and their pressure tolerance, regarding to our samples. Several deep-sea strains from the genera of Alteromonas, Halomonas,Marinobacter, Photobacterium, and Vibrio showed capacity of TMAO utilization, but none of the isolated Acinebacter, Bacillus, Brevundimonas, Muricauda, Novosphingobium, Rheinheimera, Sphingobium and Stenotrophomonas did, indicating the utilization of TMAO is a species-speci?c feature. Furthermore, we noticed that the ability of TMAO utilization varied among strains of the same species. TMAO has greater impact on the growth of deep-sea isolates of Vibrio neocaledonicus than shallow-water isolates. Taken together, the results describe for the ?rst time the TMAO utilization in deep-sea bacterial strains, and expand our understanding of the physiological characteristic of marine bacteria.  相似文献   

Molecular phylogenetic analysis of sulfate-reducing bacteria from deep sediment layers of the tropical West Pacific warm pool     

LUO Zhuhu  YE Dezan  HUANG Xiangling 《海洋学报(英文版)》2006,25(3):98-107

1IntroductionThe tropical West Pacific warm pool(TWP-WP),which spans an area roughly between10°Nto10°S of the equator from Indonesia to the dateline,has the world’s warmest sea surface temperature ofbeing greater than29℃.With the increase of recog-niz…  相似文献