Differential growth responses of soil bacterial taxa to carbon substrates of varying chemical recalcitrance.
Differential growth responses of soil bacterial taxa to carbon substrates of varying chemical recalcitrance.
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DOI：
10.3389/fmicb.2011.00094
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发表时间：
2011
影响因子：
5.2
通讯作者：
Brodie EL
中科院分区：
文献类型：
--
作者：
Goldfarb KC;Karaoz U;Hanson CA;Santee CA;Bradford MA;Treseder KK;Wallenstein MD;Brodie EL
土壤是非常多样化的微生物栖息地，有数千种细菌，古细菌和真菌物种共存。在广阔的空间尺度上，pH值和土壤水分等因素似乎决定了土壤细菌群落的多样性和结构。然而，在任何一个网站内，细菌类群的多样性很高，维持这种多样性的因素很难解决。候选因素包括有机底物的可用性和化学结构，并考虑到它们似乎在门的水平上构建细菌群落，我们研究这些因素是否可能在更精细的分类分辨率水平上构建细菌群落。通过PhyloChip微阵列分析核苷酸类似物标记的DNA的16 S rRNA基因组成，我们比较了43个部门/门中> 2，200个细菌分类群在有机基质上增加化学稳定性的相对生长率。相对丰度随不稳定有机底物增加的分类群（即，甘氨酸，蔗糖）是众多的（>500），遗传学上成簇，并且主要存在于两门（变形菌门和放线菌门）中，包括放线菌目、肠杆菌目、伯克霍尔德菌目、红环菌目、交替单胞菌目和假单胞菌目。分类群的相对丰度随着更多的化学可降解底物而增加（即，纤维素、木质素或单宁-蛋白质）较少（168），但在遗传学上更分散，存在于八个门中，包括梭菌目（Clostridiales）、鞘氨醇单胞菌目（Sphingomonadalaes）、脱硫弧菌目（Desulfovibrionales）。刚刚超过6%的检测到的类群，包括许多伯克霍尔德菌增加相对丰度与不稳定和化学不稳定的底物。响应类群的每个基因组的中值rRNA拷贝数的估计表明，这些模式与细菌生长策略大致一致。两者合计，这些数据表明，在本质上不稳定的基板的可用性的变化可能会导致在土壤细菌组成的可预测的变化。
Soils are immensely diverse microbial habitats with thousands of co-existing bacterial, archaeal, and fungal species. Across broad spatial scales, factors such as pH and soil moisture appear to determine the diversity and structure of soil bacterial communities. Within any one site however, bacterial taxon diversity is high and factors maintaining this diversity are poorly resolved. Candidate factors include organic substrate availability and chemical recalcitrance, and given that they appear to structure bacterial communities at the phylum level, we examine whether these factors might structure bacterial communities at finer levels of taxonomic resolution. Analyzing 16S rRNA gene composition of nucleotide analog-labeled DNA by PhyloChip microarrays, we compare relative growth rates on organic substrates of increasing chemical recalcitrance of >2,200 bacterial taxa across 43 divisions/phyla. Taxa that increase in relative abundance with labile organic substrates (i.e., glycine, sucrose) are numerous (>500), phylogenetically clustered, and occur predominantly in two phyla (Proteobacteria and Actinobacteria) including orders Actinomycetales, Enterobacteriales, Burkholderiales, Rhodocyclales, Alteromonadales, and Pseudomonadales. Taxa increasing in relative abundance with more chemically recalcitrant substrates (i.e., cellulose, lignin, or tannin–protein) are fewer (168) but more phylogenetically dispersed, occurring across eight phyla and including Clostridiales, Sphingomonadalaes, Desulfovibrionales. Just over 6% of detected taxa, including many Burkholderiales increase in relative abundance with both labile and chemically recalcitrant substrates. Estimates of median rRNA copy number per genome of responding taxa demonstrate that these patterns are broadly consistent with bacterial growth strategies. Taken together, these data suggest that changes in availability of intrinsically labile substrates may result in predictable shifts in soil bacterial composition.
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DOI：
10.1073/pnas.0608255104
发表时间：
2007-01-02
影响因子：
11.1
作者：
Brodie, Eoin L.;DeSantis, Todd Z.;Andersen, Gary L.
通讯作者：
Andersen, Gary L.
影响因子：
9.7
作者：
Fierer, N;Schimel, JP
通讯作者：
Schimel, JP
影响因子：
56.9
作者：
DIXON, RK;BROWN, S;WISNIEWSKI, J
通讯作者：
WISNIEWSKI, J
影响因子：
4.8
作者：
Fierer, Noah;Bradford, Mark A.;Jackson, Robert B.
通讯作者：
Jackson, Robert B.
DOI：
10.1111/j.2517-6161.1995.tb02031.x
发表时间：
1995-01-01
影响因子：
5.8
作者：
BENJAMINI, Y;HOCHBERG, Y
通讯作者：
HOCHBERG, Y