Experimentally-validated correlation analysis reveals new anaerobic methane oxidation partnerships with consortium-level heterogeneity in diazotrophy.
Experimentally-validated correlation analysis reveals new anaerobic methane oxidation partnerships with consortium-level heterogeneity in diazotrophy.
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实验验证的相关性分析揭示了新的厌氧甲烷氧化的合作伙伴关系与财团水平的异质性固氮。
DOI：
10.1038/s41396-020-00757-1
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发表时间：
2021-03
期刊：
影响因子：
--
通讯作者：
Orphan VJ
中科院分区：
文献类型：
--
作者：
Metcalfe KS;Murali R;Mullin SW;Connon SA;Orphan VJ
厌氧甲烷氧化菌（“ANME”）和硫酸盐还原δ-变形菌（“SRB”）形成能够进行厌氧甲烷氧化（AOM）的共生多细胞聚生体，并且这样做调节来自海洋沉积物的甲烷通量。然而，ANME与特定SRB伙伴原位相关的特异性知之甚少。为了表征伙伴关系的特异性在ANME SRB财团，我们采用了相关推理技术SparCC 310 16 S rRNA扩增子库制备的哥斯达黎加渗漏沉积物样品，揭示ANME-2B和三角洲变形菌的一个分支，我们称之为SEEP-SRB 1G的成员之间的强正相关性。我们证实了这种关联，通过检查16 S rRNA多样性，在个别ANME-SRB财团使用流式细胞术分选和成像ANME-SRB财团与荧光原位杂交（FISH）显微镜使用新设计的探针靶向SEEP-SRB 1g分支。属于SEEP-SRB 1g的基因组箱的分析揭示了固氮所需的完整nifHDK操纵子的存在，这在已发表的ANME相关SRB基因组中是不寻常的。然后通过显微镜使用杂交链反应（HCR-）FISH靶向nifH转录物证明ANME-2b-SEEP-SRB 1g聚生体内SEEP-SRB 1g中nifH的活性表达，并通过FISH-nanoSIMS实验记录固氮活性。用含有CH 4和15 N2的顶空孵育的ANME-2b-SEEP-SRB 1g聚生体的NanoSIMS分析揭示了两个配偶体之间细胞15 N富集的差异，其在个体聚生体之间变化，其中SEEP-SRB 1g细胞相对于ANME-2b在一个聚生体中富集15 N，而在其他聚生体中观察到相反的模式，表明ANME-2b和SEEP-SRB 1g都能够固氮，但在古细菌或细菌伴侣是否是占优势的固氮生物方面具有聚生体特异性变化。
Archaeal anaerobic methanotrophs (“ANME”) and sulfate-reducing Deltaproteobacteria (“SRB”) form symbiotic multicellular consortia capable of anaerobic methane oxidation (AOM), and in so doing modulate methane flux from marine sediments. The specificity with which ANME associate with particular SRB partners in situ, however, is poorly understood. To characterize partnership specificity in ANME-SRB consortia, we applied the correlation inference technique SparCC to 310 16S rRNA amplicon libraries prepared from Costa Rica seep sediment samples, uncovering a strong positive correlation between ANME-2b and members of a clade of Deltaproteobacteria we termed SEEP-SRB1g. We confirmed this association by examining 16S rRNA diversity in individual ANME-SRB consortia sorted using flow cytometry and by imaging ANME-SRB consortia with fluorescence in situ hybridization (FISH) microscopy using newly-designed probes targeting the SEEP-SRB1g clade. Analysis of genome bins belonging to SEEP-SRB1g revealed the presence of a complete nifHDK operon required for diazotrophy, unusual in published genomes of ANME-associated SRB. Active expression of nifH in SEEP-SRB1g within ANME-2b—SEEP-SRB1g consortia was then demonstrated by microscopy using hybridization chain reaction (HCR-) FISH targeting nifH transcripts and diazotrophic activity was documented by FISH-nanoSIMS experiments. NanoSIMS analysis of ANME-2b—SEEP-SRB1g consortia incubated with a headspace containing CH4 and 15N2 revealed differences in cellular 15N-enrichment between the two partners that varied between individual consortia, with SEEP-SRB1g cells enriched in 15N relative to ANME-2b in one consortium and the opposite pattern observed in others, indicating both ANME-2b and SEEP-SRB1g are capable of nitrogen fixation, but with consortium-specific variation in whether the archaea or bacterial partner is the dominant diazotroph.
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DOI：
10.1073/pnas.0407024101
发表时间：
2004-10-26
影响因子：
11.1
作者：
Dirks, RM;Pierce, NA
通讯作者：
Pierce, NA
影响因子：
11
作者：
Degnan, Patrick H.;Ochman, Howard
通讯作者：
Ochman, Howard
影响因子：
56.9
作者：
Dekas, Anne E.;Poretsky, Rachel S.;Orphan, Victoria J.
通讯作者：
Orphan, Victoria J.
影响因子：
64.8
作者：
Boetius, A;Ravenschlag, K;Pfannkuche, O
通讯作者：
Pfannkuche, O
DOI：
10.1073/pnas.1101405108
发表时间：
2011-08-02
影响因子：
11.1
作者：
Campbell, Barbara J.;Yu, Liying;Kirchman, David L.
通讯作者：
Kirchman, David L.