Full-length 16S rRNA amplicon sequencing reveals the variation of epibiotic microbiota associated with two shrimp species of Alvinocarididae: possibly co-determined by environmental heterogeneity and specific recognition of hosts.
Full-length 16S rRNA amplicon sequencing reveals the variation of epibiotic microbiota associated with two shrimp species of Alvinocarididae: possibly co-determined by environmental heterogeneity and specific recognition of hosts.
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全长 16S rRNA 扩增子测序揭示了与 Alvinocarididae 两种虾相关的表生微生物群的变化：可能是由环境异质性和宿主的特异性识别共同决定的
作者：
Hui, Min;Wang, Aiyang;Cheng, Jiao;Sha, Zhongli
虾科虾是深海化学合成生态系统的特有物种，其鳃上的表观微生物可能对虾的生存起着重要作用。其中，Alvinocaris longirostris和Shinkaicaris leurokolos在冲绳海槽同一热液喷口内占据不同的生态位，a. longirostris也存在于南海的甲烷渗漏中。本研究首次利用单分子实时测序技术捕获了来自不同化学合成生态位的两种鱼鳃相关菌的16S rRNA全序列。共获得长度约1450 bp的优化圆形一致序列120,792个，聚类为578个可操作分类单元。Alpha多样性分析结果表明，长鼻竹的物种丰富度和均匀度最高，平均Chao1 = 213.68, Shannon = 3.39。Beta多样性分析结果表明，所有样品均可划分为3个类群，且与其他类群相比，渗漏和通风口的微生物群落相关性更强。多因素方差分析结果显示，长叶刺槐群落组成差异显著（R2 = 0.731, P = 0.001）。分类标签进一步划分为21门40纲89目124科135属。总体而言，微生物群落以Campylobacteria和Gammaproteobacteria为主。α变形菌、拟杆菌、Verrucomicrobiae、Bacilli等少数菌群的丰度也较低。从排气口的leurokolos样品中恢复的分类类群仅以sulfurovacae科为主（94.06%）。相比之下，长鼻拟南南蛇鳃相关菌群由更多样化的硫氧化菌组成，包括Sulfurovaceae（69.21%）、Thiotrichaceae（6.77%）和推测的新型Gammaproteobacteria group(14.37%)，而在长鼻拟南蛇鳃相关菌群中，Gammaproteobacteria n-group（44.01%）是主要组成部分，其次是甲烷氧化菌Methylomonadaceae（19.38%）和Sulfurovaceae（18.66%）。因此，虾鳃相关菌的组成和丰度与宿主的生境异质性和菌群选择密切相关。然而，这些虾与表观生物群落之间的相互作用需要进一步研究基于宏基因组测序和荧光原位杂交。
Shrimps of the family Alvinocarididae, endemic species to deep sea chemosynthetic ecosystems, harbor epibiotic microbes on gills which probably play important roles in the survival of the shrimps. Among them, Alvinocaris longirostris and Shinkaicaris leurokolos occupy different ecological niches within the same hydrothermal vent in Okinawa Trough, and A. longirostris also exists in a methane seep of the South China Sea. In this study, full-length 16S rRNA sequences of the gill associated bacteria of two alvinocaridid species from different chemosynthetically ecological niches were first captured by single-molecule real-time sequencing. Totally, 120,792 optimized circular consensus sequences with ∼1,450 bp in length were obtained and clustered into 578 operational taxonomic units. Alpha diversity analysis showed seep A. longirostris had the highest species richness and evenness (average Chao1 = 213.68, Shannon = 3.39). Beta diversity analysis revealed that all samples were clearly divided into three groups, and microbial community of A. longirostris from seep and vent were more related than the other comparisons. By permutational multivariate analysis of variance, the most significant community compositional variance was detected between seep A. longirostris and vent S. leurokolos (R2 = 0.731, P = 0.001). The taxon tags were further classified into 21 phyla, 40 classes, 89 orders, 124 families and 135 genera. Overall, the microbial communities were dominated by Campylobacteria and Gammaproteobacteria. Alphaproteobacteria, Bacteroidia, Verrucomicrobiae, Bacilli and other minor groups were also detected at lower abundance. Taxonomic groups recovered from the vent S. leurokolos samples were only dominated by Sulfurovaceae (94.06%). In comparison, gill-associated microbiota of vent A. longirostris consisted of more diverse sulfur-oxidizing bacteria, including Sulfurovaceae (69.21%), Thiotrichaceae (6.77%) and a putative novel Gammaproteobacteria group (14.37%), while in seep A. longirostris, Gammaproteobacteria un-group (44.01%) constituted the major component, following the methane-oxidizing bacteria Methylomonadaceae (19.38%), and Sulfurovaceae (18.66%). Therefore, the gill associated bacteria composition and abundance of alvinocaridid shrimps are closely related to the habitat heterogeneity and the selection of microbiota by the host. However, the interaction between these alvinocaridid shrimps and the epibiotic communities requires further study based on metagenome sequencing and fluorescence in situ hybridization.
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影响因子：
4.2
作者：
Duperron, Sebastien;Fiala-Medioni, Aline;Sibuet, Myriam
通讯作者：
Sibuet, Myriam
影响因子：
4.4
作者：
EHRENREICH, A;WIDDEL, F
通讯作者：
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影响因子：
56.9
作者：
CAVANAUGH, CM;GARDINER, SL;WATERBURY, JB
通讯作者：
WATERBURY, JB
影响因子：
9.8
作者：
Cabrol, Lea;Thalasso, Frederic;Barret, Maialen
通讯作者：
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影响因子：
1.6
作者：
GILTURNES, MS;FENICAL, W
通讯作者：
FENICAL, W