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? ? ? ?土壤有機(jī)質(zhì) (SOM) 是地球上最大的陸地有機(jī)碳庫，SOM 動(dòng)態(tài)對(duì)全球碳循環(huán)有重大影響。SOM 對(duì)土地管理和氣候變化敏感，而SOM 庫顯著影響土壤健康、農(nóng)業(yè)生產(chǎn)力和氣候穩(wěn)定性。然而，關(guān)于 SOM持久性和損失的機(jī)制仍然不確定。微生物是 SOM 分解、穩(wěn)定和礦化的主要驅(qū)動(dòng)因素，土壤微生物在控制全球 C 通量方面發(fā)揮著關(guān)鍵作用，但決定 SOM 動(dòng)態(tài)的微生物機(jī)制仍不清楚。
? ? ??2021年11月23日，權(quán)威綜合學(xué)術(shù)期刊PNAS刊發(fā)相關(guān)研究論文，康奈爾大學(xué)Daniel H. Buckley為論文通訊作者，博士生Samuel E. Barnett為論文第一作者，論文題目：Multisubstrate DNA stable isotope probing reveals guild structure of bacteria that mediate soil carbon cycling。
? ? ??作者采用了多底物、DNA 穩(wěn)定同位素探測實(shí)驗(yàn)示蹤不同生物可利用度、不同來源碳的細(xì)菌同化過程。這種方法使我們能夠通過測量不同微生物相互作用的碳同化動(dòng)力學(xué)來測量微生物對(duì) SOM的貢獻(xiàn)。作者鑒定了 1,286 個(gè)細(xì)菌類群，它們?cè)?48 天的時(shí)間里同化了農(nóng)業(yè)土壤中的 13C。細(xì)菌類群的整體 13C 同化動(dòng)力學(xué)受13C的來源和時(shí)間影響，表現(xiàn)出低系統(tǒng)發(fā)育保守性。因此確定了由具有相似 13C 同化動(dòng)力學(xué)的分類群組成結(jié)構(gòu)。碳源生物利用度解釋了碳礦化動(dòng)態(tài)和群落結(jié)構(gòu)的顯著變化，并且細(xì)菌生長動(dòng)態(tài)因碳添加而顯著不同。微生物結(jié)構(gòu)解釋了大陸和全球范圍內(nèi)細(xì)菌生物地理分布的變化。因此，可見，了解原位生長動(dòng)態(tài)對(duì)于了解微生物對(duì)土壤碳循環(huán)的貢獻(xiàn)至關(guān)重要。
圖1. 實(shí)驗(yàn)設(shè)計(jì)和流程
? ? ? This experiment employed soil microcosms, each amended with all nine C sources (added at 0.4 mg C per gram of soil), only one of which was >99% 13C-labeled in treatment microcosms. Control microcosms had all nine C sources added but none were isotopically labeled. Microcosms were destructively sampled at multiple time points (black bars) based on mineralization rates from preliminary experiment. Headspace samples were taken every 1 to 7 d. DNA extracted from microcosm soil was used both for DNA-SIP and whole bacterial community sequencing (unfractionated).
圖2. C 源礦化動(dòng)態(tài)
? ? ? C source mineralization dynamics varied based on bioavailability. (A) 13C mineralization rates and (B) cumulative amounts of 13C mineralized per gram dry weight of soil. (A, Inset) A finer-scale representation of the 13C mineralization rates over days 0 to 10. Error bars represent ± SD among microcosm replicates (n = 3).
圖3. 1,286 個(gè) OTU 顯著差異的 13C 標(biāo)記特征
? ? ? The dynamics of C assimilation varied across the 1,286 OTUs that exhibited significant 13C labeling. OTUs are ordered by their phylogeny with phylum, or class for Proteobacteria, indicated by different colors in the phylogenetic tree. Only phyla/classes with 10 or more 13C-labeled OTUs are colored, with others colored gray. Each vertical block indicates 13C-labeling results for a single day as specified at the top. Each column within a block indicates results for a given substrate as specified along the bottom. Rows display 13C-labeling dynamics for each OTU as follows: red bars indicate 13C-labeling, light gray bars indicate OTU detection in the gradient but no evidence of labeling, white indicates the OTU was not detected in the gradient. Phylum/class abbreviations: Bact. = Bacteroidetes, Acido. = Acidobacteria, Gemm. = Gemmatimonadetes, Chl-flx. = Chloroflexi, Firmi. = Firmicutes, Actino. = Actinobacteria, Verruc. = Verrucomicrobia, Plancto. = Planctomycetes, Beta. = Betaproteobacteria, Gamma. = Gammaproteobacteria, Delta. = Deltaproteobacteria, Alpha. = Alphaproteobacteria.
圖4. 代表公會(huì) 2 (OTU.197)、14 (OTU.22) 和 19 (OTU.7163) 最豐富的 OTU 的生長和 13C 標(biāo)記動(dòng)態(tài)
? ? ? Growth and 13C-labeling dynamics of the most abundant OTUs representing guilds 2 (OTU.197), 14 (OTU.22), and 19 (OTU.7163), which are the guilds most differentiated by PCA (Fig. 5E). (A) The 13C-labeling pattern differs between the three exemplar OTUs. Circles show times when 13C labeling was detected for each substrate and OTU responses are identified by circle color as defined in B. Black rectangles indicate the times when DNA-SIP was performed for each 13C-labeled substrate and red rectangles indicate the time of peak C mineralization for each C source (Fig. 2). (B) Growth dynamics differ between the three exemplar OTUs. Normalized abundance (expressed as micrograms of DNA) is calculated from relative abundance values normalized by rrn copy number and DNA yield.
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