合理氮肥用量改善冬小麦土壤耕层细菌群落结构及理化性质研究

刘琪, 高志强, 杨珍平, 乔月静

中国农学通报. 2022, 38(30): 77-84

PDF(2714 KB)
PDF(2714 KB)
中国农学通报 ›› 2022, Vol. 38 ›› Issue (30) : 77-84. DOI: 10.11924/j.issn.1000-6850.casb2021-1058
资源·环境·生态·土壤

合理氮肥用量改善冬小麦土壤耕层细菌群落结构及理化性质研究

作者信息 +

Rational Nitrogen Fertilizer Application Rates Improving the Bacterial Community Structure and Physicochemical Properties of Winter Wheat Tillage Soil

Author information +
History +

摘要

通过对黄土高原地区冬小麦在不同施氮水平下土壤细菌群落多样性和理化性质的研究,揭示不同施氮量下土壤细菌群落结构的变化规律,为科学施肥以及土壤生态系统的可持续提供依据。本试验处理为5个不同施氮(N)量0 (N0)、90 (N6)、180 (N12)、240 (N16)、300 (N20) kg/hm2,N0处理为对照,采用高通量测序技术,研究不同施氮量对小麦耕层土壤细菌群落结构及理化性质的影响。结果表明:增施氮肥显著增加了土壤水稳性团聚体平均重量直径(MWD) (P<0.05)。随着施氮量的增加,土壤酶活性先升高后下降,在N12处理下土壤酶活性均最高。施氮量对土壤细菌多样性指数有显著影响。不同施氮量处理中土壤细菌16S rRNA基因拷贝数为6.47×1010~15.18×1010,在N12处理达到最大值。在门水平上,15个样品获得的类群中变形菌门(Proteobacteria)、放线菌门(Actinobacteria)、酸杆菌门(Acidobacteria)、绿弯菌门(Chloroflexi)和芽单胞菌门(Gemmatimonadetes)为优势类群,其中N12处理显著提高变形菌门、硝化螺旋菌门的相对丰度,且N12处理的酸杆菌门相对丰度最低。主成分分析结果表明N12处理与其他处理距离较远。冗余分析表明,土壤理化性质及土壤酶与细菌群落密切相关。因此,施氮量显著影响土壤细菌群落结构及理化性质,施氮量(N)为180 kg/hm2时有利于提高细菌群落多样性及改善土壤结构。

Abstract

Through the study of soil bacterial community diversity and soil physicochemical properties of winter wheat under different nitrogen application rates in the Loess Plateau, the changes of soil bacterial community structure under different nitrogen application rates are revealed, which can provide a basis for scientific fertilization and sustainable soil ecosystem. The experiment set treatments of 5 different nitrogen rates, which were 0 (N0), 90 (N6), 180 (N12), 240 (N16) and 300 (N20) kg/hm2, and N0 treatment was used as a control. Using the high-throughput sequencing method, the effects of different nitrogen application rates on soil bacterial community structure and physicochemical properties were studied. The results showed that the increase of nitrogen fertilizer significantly increased the soil water-stable aggregate mean weight diameter (MWD) (P<0.05). With the increase of nitrogen application rate, soil enzyme activity first increased and then decreased, and the soil enzyme activity was the highest under N12 treatment. The nitrogen application rates had a significant effect on the soil bacterial diversity index. The 16S rRNA gene copy number of soil bacteria in different nitrogen application treatments was 6.47×1010 to 15.18×1010, which reached the maximum in N12 treatment. At the level of the phylum, Proteobacteria, Actinobacteria, Acidobacteria, Chloroflexi and Gemmatimonadetes were the dominant in the 15 samples; N12 treatment significantly increased the relative abundance of Proteobacteria and Nitrospira, and the relative abundance of Acidobacteria was the lowest in N12 treatment. Principal component analysis results showed that N12 treatment was far away from other treatments. Redundancy analysis showed that soil physicochemical properties and soil enzymes were closely related to bacterial communities. Therefore, the nitrogen application rate could significantly affect the soil bacterial community structure and physicochemical properties. When the nitrogen application rate is 180 kg/hm2, it is beneficial to increasing the bacterial community diversity and improving the soil structure.

关键词

施氮量 / 土壤 / 细菌群落结构 / 理化性质 / 冬小麦

Key words

nitrogen application rate / soil / bacterial community structure / physicochemical properties / winter wheat

引用本文

导出引用
刘琪 , 高志强 , 杨珍平 , 乔月静. 合理氮肥用量改善冬小麦土壤耕层细菌群落结构及理化性质研究. 中国农学通报. 2022, 38(30): 77-84 https://doi.org/10.11924/j.issn.1000-6850.casb2021-1058
LIU Qi , GAO Zhiqiang , YANG Zhenping , QIAO Yuejing. Rational Nitrogen Fertilizer Application Rates Improving the Bacterial Community Structure and Physicochemical Properties of Winter Wheat Tillage Soil. Chinese Agricultural Science Bulletin. 2022, 38(30): 77-84 https://doi.org/10.11924/j.issn.1000-6850.casb2021-1058

参考文献

[1]
BELL T, NEWMAN J A, SILVERMAN B W, et al. The contribution of species richness and composition to bacterial services[J]. Nature (London), 2005, 436(7054):1157-1160.
[2]
FALKOWSKI P G, FENCHEL T, DELONG E F. The microbial engines that drive earth’s biogeochemical cycles[J]. Science, 2008, 320(5879):1034-1039.
[3]
吴娜, 刘吉利, 鲁文. 马铃薯/燕麦间作对根际土壤微生物数量的影响[J]. 西北农业学报, 2015, 24(5):163-167.
[4]
赵护兵, 王朝辉, 高亚军, 等. 陕西省农户小麦施肥调研评价[J]. 植物营养与肥料学报, 2016, 22(1):245-253.
[5]
MENDES R, GARBEVA P, RAAIJMAKERS J M. The rhizosphere microbiome: significance of plant beneficial, plant pathogenic, and human pathogenic microorganisms[J]. FEMS microbiology reviews, 2013, 37(5):634-663.
Microbial communities play a pivotal role in the functioning of plants by influencing their physiology and development. While many members of the rhizosphere microbiome are beneficial to plant growth, also plant pathogenic microorganisms colonize the rhizosphere striving to break through the protective microbial shield and to overcome the innate plant defense mechanisms in order to cause disease. A third group of microorganisms that can be found in the rhizosphere are the true and opportunistic human pathogenic bacteria, which can be carried on or in plant tissue and may cause disease when introduced into debilitated humans. Although the importance of the rhizosphere microbiome for plant growth has been widely recognized, for the vast majority of rhizosphere microorganisms no knowledge exists. To enhance plant growth and health, it is essential to know which microorganism is present in the rhizosphere microbiome and what they are doing. Here, we review the main functions of rhizosphere microorganisms and how they impact on health and disease. We discuss the mechanisms involved in the multitrophic interactions and chemical dialogues that occur in the rhizosphere. Finally, we highlight several strategies to redirect or reshape the rhizosphere microbiome in favor of microorganisms that are beneficial to plant growth and health. © 2013 Federation of European Microbiological Societies. Published by John Wiley & Sons Ltd. All rights reserved.
[6]
ABBOTT L K, MURPHY D V. Soil biological fertility[M]. Springer:Netherlands, 2007:1-15.
[7]
宋亚娜, 林艳, 陈子强. 氮肥水平对稻田细菌群落及N2O排放的影响[J]. 中国生态农业学报, 2017, 25(9):1266-1275.
[8]
包明, 何红霞, 马小龙, 等. 化学氮肥与绿肥对麦田土壤细菌多样性和功能的影响[J]. 土壤学报, 2018, 55(3):211-220.
[9]
RAMIREZ K S, CRAINE J M, FIERER N. Consistent effects of nitrogen amendments on soil microbial communities and processes across biomes[J]. Global change biology, 2012, 18(6):1918-1927.
[10]
MA H K, BAI G Y, SUN Y, et al. Opposing effects of nitrogen and water addition on soil bacterial and fungal communities in the Inner Mongolia steppe: a field experiment[J]. Applied soil ecology, 2016, 108:128-135.
[11]
付智丹, 周丽, 陈平, 等. 施氮量对玉米/大豆套作系统土壤微生物数量及土壤酶活性的影响[J]. 中国生态农业学报, 2017, 25(10):1463-1474.
[12]
袁红朝, 秦红灵, 刘守龙, 等. 长期施肥对红壤性水稻土细菌群落结构和数量的影响[J]. 中国农业科学, 2011, 44(22):4610-4617.
[13]
邢旭明, 王红梅, 安婷婷, 等. 长期施肥对棕壤团聚体组成及其主要养分赋存的影响[J]. 水土保持学报, 2015, 29(2):267-273.
[14]
ZENG Q C, DONG Y H, AN S S. Bacterial community responses to soils along a latitudinal and vegetation gradient on the Loess Plateau, China[J]. Plos one, 2016, 11(4):e0152894.
[15]
LIU D, YANG Y, AN S.S, et al. The biogeographical distribution of soil bacterial communities in the Loess Plateau as revealed by high-throughput sequencing[J]. Frontiers in microbiology, 2018, 9:2456.
The rigorous environmental stress of the severely eroded Loess Plateau may have promoted specific soil bacterial communities in comparison to other eco-environmental regions. In order to unmask the bacterial diversity and most influential environmental parameters, Illumina MiSeq high throughput sequencing of 16S rRNA from 24 representative soil samples collected across south-east to north-west transect of the Loess Plateau in northern Shaanxi, China was conducted. This high-throughput sequencing revealed a total of 1,411,001 high quality sequences that classified into 38 phyla, 127 classes, >240 orders, and over 650 genera, suggesting a high bacterial richness across the Loess Plateau soils. The seven dominant groups were: Proteobacteria, Actinobacteria, Acidobacteria, Planctomycetes, Gemmatimonadetes, Chloroflexi, and Verrucomicrobi (relative abundance of >5%). Increasing/ decreasing soil pH and geographic longitudinal distance correlated significantly with increasing/decreasing bacterial richness and diversity indices. Pairwise correlation analysis showed higher bacterial diversity at longitudinal gradients across 107 degrees 39'-109 degrees 15' (south-east to north-west) in our studied Chinese loess zone. Variation partitioning analysis indicated significant influence of soil characteristics (similar to 40.4%) than geographical distance (at a landscape scale of similar to 400 km) that was responsible for 13.6% of variation in bacterial community structure from these soils. Overall, contemporary soil characteristics structure the bacterial community in Loess Plateau soil to a greater extent than the spatial distances along the loess transect.
[16]
关松荫. 土壤酶及其研究法[M]. 北京: 农业出版社,1986.
[17]
李慧, 代新俊, 高志强. 夏闲期耕作对黄土高原旱地麦田土壤水稳性团聚体稳定性的影响[J]. 中国农业科学, 2018, 51(13):2524-2534.
[18]
李慧. 夏闲期耕作对旱地麦田土壤质量的影响[D]. 太原: 山西农业大学, 2018.
[19]
CAPORASO J G, KUCZYNSKI J, STOMBAUGH J, et al. QIIME allows analysis of high-throughput community sequencing data[J]. Nat methods, 2010, 7:335-336.
[20]
EDGAR R C. Search and clustering orders of magnitude faster than BLAST[J]. Bioinformatics, 2010, 26(19):2460-2461.
Biological sequence data is accumulating rapidly, motivating the development of improved high-throughput methods for sequence classification.UBLAST and USEARCH are new algorithms enabling sensitive local and global search of large sequence databases at exceptionally high speeds. They are often orders of magnitude faster than BLAST in practical applications, though sensitivity to distant protein relationships is lower. UCLUST is a new clustering method that exploits USEARCH to assign sequences to clusters. UCLUST offers several advantages over the widely used program CD-HIT, including higher speed, lower memory use, improved sensitivity, clustering at lower identities and classification of much larger datasets.Binaries are available at no charge for non-commercial use at http://www.drive5.com/usearch.
[21]
杨亚东, 王志敏, 曾昭海. 长期施肥和灌溉对土壤细菌数量多样性和群落结构的影响[J]. 中国农业科学, 2018, 51(2):290-301.
[22]
罗培宇, 樊耀, 杨劲峰, 等. 长期施肥对棕壤氨氧化细菌和古菌丰度的影响[J]. 植物营养与肥料学报, 2017, 23(3):678-685.
[23]
ZHANG Y T, SHEN H, HE X H, et al. Fertilization shapes bacterial community structure by alteration of soil pH[J]. Frontiers in microbiology, 2017, 8:1325.
Application of chemical fertilizer or manure can affect soil microorganisms directly by supplying nutrients and indirectly by altering soil pH. However, it remains uncertain which effect mostly shapes microbial community structure. We determined soil bacterial diversity and community structure by 454 pyrosequencing the V1-V3 regions of 16S rRNA genes after 7-years (2007-2014) of applying chemical nitrogen, phosphorus and potassium (NPK) fertilizers, composted manure or their combination to acidic (pH 5.8), near-neutral (pH 6.8) or alkaline (pH 8.4) Eutric Regosol soil in a maize-vegetable rotation in southwest China. In alkaline soil, nutrient sources did not affect bacterial Operational Taxonomic Unit (OTU) richness or Shannon diversity index, despite higher available N, P, K, and soil organic carbon in fertilized than in unfertilized soil. In contrast, bacterial OTU richness and Shannon diversity index were significantly lower in acidic and near-neutral soils under NPK than under manure or their combination, which corresponded with changes in soil pH. Permutational multivariate analysis of variance showed that bacterial community structure was significantly affected across these three soils, but the PCoA ordination patterns indicated the effect was less distinct among nutrient sources in alkaline than in acidic and near-neural soils. Distance-based redundancy analysis showed that bacterial community structures were significantly altered by soil pH in acidic and near-neutral soils, but not by any soil chemical properties in alkaline soil. The relative abundance (%) of most bacterial phyla was higher in near-neutral than in acidic or alkaline soils. The most dominant phyla were Proteobacteria (24.6%), Actinobacteria (19.7%), Chloroflexi (15.3%) and Acidobacteria (12.6%); the medium dominant phyla were Bacterioidetes (5.3%), Planctomycetes (4.8%), Gemmatimonadetes (4.5%), Firmicutes (3.4%), Cyanobacteria (2.1%), Nitrospirae (1.8%), and candidate division TM7 (1.0%); the least abundant phyla were Verrucomicrobia (0.7%), Armatimonadetes (0.6%), candidate division WS3 (0.4%) and Fibrobacteres (0.3%). In addition, Cyanobacteria and candidate division TM7 were more abundant in acidic soil, whereas Gemmatimonadetes, Nitrospirae and candidate division WS3 weremore abundant in alkaline soil. We conclude that after 7-years of fertilization, soil bacterial diversity and community structure were shaped more by changes in soil pH rather than the direct effect of nutrient addition.
[24]
HARTMANN M, FREY B, MAYER J, et al. Distinct soil microbial diversity under long-term organic and conventional farming[J]. The isme journal, 2015, 9:1177-1194.
[25]
SUN R B, ZHANG X X, GUO X S, et al. Bacterial diversity in soils subjected to long-term chemical fertilization can be more stably maintained with the addition of livestock manure than wheat straw[J]. Soil biology and biochemistry, 2015, 88:9-18.
[26]
FRANCIOLI D, SCHULZ E, LENTENDU G, et al. Mineral vs. organic amendments: microbial community structure, activity and abundance of agriculturally relevant microbes are driven by long-term fertilization strategies[J]. Frontiers in microbiology, 2016, 7:1446.
Soil management is fundamental to all agricultural systems and fertilization practices have contributed substantially to the impressive increases in food production. Despite the pivotal role of soil microorganisms in agro-ecosystems, we still have a limited understanding of the complex response of the soil microbiota to organic and mineral fertilization in the very long-term. Here, we report the effects of different fertilization regimes (mineral, organic and combined mineral and organic fertilization), carried out for more than a century, on the structure and activity of the soil microbiome. Organic matter content, nutrient concentrations, and microbial biomass carbon were significantly increased by mineral, and even more strongly by organic fertilization. Pyrosequencing revealed significant differences between the structures of bacterial and fungal soil communities associated to each fertilization regime. Organic fertilization increased bacterial diversity, and stimulated microbial groups (Firmicutes. Proteobacteria, and Zygomycota) that are known to prefer nutrient-rich environments, and that are involved in the degradation of complex organic compounds. In contrast, soils not receiving manure harbored distinct microbial communities enriched in oligotrophic organisms adapted to nutrient-limited environments, as Acidobacteria. The fertilization regime also affected the relative abundances of plant beneficial and detrimental microbial taxa, which may influence productivity and stability of the agroecosystem. As expected, the activity of microbial exoenzymes involved in carbon, nitrogen, and phosphorous mineralization were enhanced by both types of fertilization. However, in contrast to comparable studies, the highest chitinase and phosphatase activities were observed in the solely mineral fertilized soil. Interestingly, these two enzymes showed also a particular high biomass-specific activities and a strong negative relation with soil pH. As many soil parameters are known to change slowly, the particularity of unchanged fertilization treatments since 1902 allows a profound assessment of linkages between management and abiotic as well as biotic soil parameters. Our study revealed that pH and TOG were the majors, while nitrogen and phosphorous pools were minors, drivers for structure and activity of the soil microbial community. Due to the long-term treatments studied, our findings likely represent permanent and stable, rather than transient, responses of soil microbial communities to fertilization.
[27]
李荣, 侯贤清, 吴鹏年, 等. 秸秆还田配施氮肥对土壤性状与水分利用效率的影响[J]. 农业机械学报, 2019, 50(8):289-298.
[28]
CHEN J, ARAFAT Y, WU L K, et al. Shifts in soil microbial community, soil enzymes and crop yield underpeanut/maize intercropping with reduced nitrogen levels[J]. Applied soil ecology, 2018, 124:327-334.
[29]
MARKLEIN A R, HOULTON B Z. Nitrogen inputs accelerate phosphorus cycling rates across a wide variety of terrestrial ecosystems[J]. New phytologist, 2012, 193(3):696-704.
• Biologically essential elements--especially nitrogen (N) and phosphorus (P)--constrain plant growth and microbial functioning; however, human activities are drastically altering the magnitude and pattern of such nutrient limitations on land. Here we examine interactions between N and P cycles of P mineralizing enzyme activities (phosphatase enzymes) across a wide variety of terrestrial biomes. • We synthesized results from 34 separate studies and used meta-analysis to evaluate phosphatase activity with N, P, or N×P fertilization. • Our results show that N fertilization enhances phosphatase activity, from the tropics to the extra-tropics, both on plant roots and in bulk soils. By contrast, P fertilization strongly suppresses rates of phosphatase activity. • These results imply that phosphatase enzymes are strongly responsive to changes in local nutrient cycle conditions. We also show that plant phosphatases respond more strongly to fertilization than soil phosphatases. The tight coupling between N and P provides a mechanism for recent observations of N and P co-limitation on land. Moreover, our results suggest that terrestrial plants and microbes can allocate excess N to phosphatase enzymes, thus delaying the onset of single P limitation to plant productivity as can occur via human modifications to the global N cycle.© 2011 The Authors. New Phytologist © 2011 New Phytologist Trust.
[30]
LEIRóSa M C, TRASAR-CEPEDA C, SEOANEA S, et al. Biochemical properties of acid soils under climax vegetation (Atlantic oakwood) in an area of the European temperate humid zone (Galicia, NW Spain): general parameter[J]. Soil biology and biochemistry, 2000, 32(6):733-745.
[31]
WANG J, BAO J T, SU J Q, et al. Impact of inorganic nitrogen additions on microbes in biological soil crusts[J]. Soil biology and biochemistry, 2015, 88:303-313.
[32]
ZHOU J, JIANG X, WEI D, et al. Consistent effects of nitrogen fertilization on soil bacterial communities in black soils for two crop seasons in China[J]. Scientific reports, 2017, 7(1):3267.
Long-term use of inorganic nitrogen (N) fertilization has greatly influenced the bacterial community in black soil of northeast China. It is unclear how N affects the bacterial community in two successive crop seasons in the same field for this soil type. We sampled soils from a long-term fertilizer experimental field in Harbin city with three N gradients. We applied sequencing and quantitative PCR targeting at the 16S rRNA gene to examine shifts in bacterial communities and test consistent shifts and driving-factors bacterial responses to elevated N additions. N addition decreased soil pH and bacterial 16S rDNA copy numbers, and increased soil N and crop yield. N addition consistently decreased bacterial diversity and altered bacterial community composition, by increasing the relative abundance of Proteobacteria, and decreasing that of Acidobacteria and Nitrospirae in both seasons. Consistent changes in the abundant classes and genera, and the structure of the bacterial communities across both seasons were observed. Our results suggest that increases in N inputs had consistent effects on the richness, diversity and composition of soil bacterial communities across the crop seasons in two continuous years, and the N addition and the subsequent edaphic changes were important factors in shaping bacterial community structures.
[33]
YANG Y, CHENG H, GAO H, et al. Response and driving factors of soil microbial diversity related to global nitrogen addition[J]. Land degradation ang development, 2020, 31(2):190-204.
[34]
BOBBINK R, HICKS K, GALLOWAY J, et al. Global assessment of nitrogen deposition effects on terrestrial plant diversity: a synthesis[J]. Ecological applications, 2010, 20(1):30-59.
[35]
PHILIPPOT L, SPOR A, HÉNAULT C, et al. Loss in microbial diversity affects nitrogen cycling in soil[J]. The isme journal, 2013, 7(8):1609-1619.
[36]
CHAER G, FERNANDES M, MYROLD D, et al. Comparative resistance and resilience of soil microbial communities and enzyme activities in adjacent native forest and agricultural soils[J]. Microbial ecology, 2009, 58(2):414-424.
Degradation of soil properties following deforestation and long-term soil cultivation may lead to decreases in soil microbial diversity and functional stability. In this study, we investigated the differences in the stability (resistance and resilience) of microbial community composition and enzyme activities in adjacent soils under either native tropical forest (FST) or in agricultural cropping use for 14 years (AGR). Mineral soil samples (0 to 5 cm) from both areas were incubated at 40 degrees C, 50 degrees C, 60 degrees C, or 70 degrees C for 15 min in order to successively reduce the microbial biomass. Three and 30 days after the heat shocks, fluorescein diacetate (FDA) hydrolysis, cellulase and laccase activities, and phospholipid-derived fatty acids-based microbial community composition were measured. Microbial biomass was reduced up to 25% in both soils 3 days after the heat shocks. The higher initial values of microbial biomass, enzyme activity, total and particulate soil organic carbon, and aggregate stability in the FST soil coincided with higher enzymatic stability after heat shocks. FDA hydrolysis activity was less affected (more resistance) and cellulase and laccase activities recovered more rapidly (more resilience) in the FST soil relative to the AGR counterpart. In the AGR soil, laccase activity did not show resilience to any heat shock level up to 30 days after the disturbance. Within each soil type, the microbial community composition did not differ between heat shock and control samples at day 3. However, at day 30, FST soil samples treated at 60 degrees C and 70 degrees C contained a microbial community significantly different from the control and with lower biomass regardless of high enzyme resilience. Results of this study show that deforestation followed by long-term cultivation changed microbial community composition and had differential effects on microbial functional stability. Both soils displayed similar resilience to FDA hydrolysis, a composite measure of a broad range of hydrolases, supporting the concept of high functional redundancy in soil microbial communities. In contrast, the resilience of the substrate-specific activities of laccase and cellulase were lower in AGR soils, indicating a less diverse community of microorganisms capable of producing these enzymes and confirming that specific microbial functions are more sensitive measurements for evaluating change in the ecological stability of soils.
[37]
FIERER N, BRADFORD M A, JaCKSON R B. Toward an ecologial classification of soil bacteria[J]. Ecology, 2007, 88(6):1354-1364.
[38]
SMIT E, LEEFLANG P, GOMMANS S, et al. Diversity and seasonal fluctuations of the dominant members of the bacterial soil community in a wheat field as determined by cultivation and molecular methods[J]. Appl environ microbiol. 2001, 67:2284-2291.
[39]
MCCAIG A E, GLOVER L A, PROSSER J I. Numerical analysis of grassland bacterial community structure under different land management regimens by using 16S ribosomal DNA sequence data and denaturing gradient gel electrophoresis banding patterns[J]. Appl environ microbiol. 2001, 67:4554-4559.
[40]
WATSON S W, BOCK E, VALOIS F W, et al. Nitrospira marina, gen. nov. sp. nov.: a chemolithotrophic nitrite-oxidizing bacterium[J]. Archives of microbiology, 1986, 144(1):1-7.
[41]
BECRAFT E D, WOYKE T, JARETT J, et al. Rokubacteria: genomic giants among the uncultured bacterial phyla[J]. Frontiers in microbiology, 2017, 8:2264.
Recent advances in single-cell genomic and metagenomic techniques have facilitated the discovery of numerous previously unknown, deep branches of the tree of life that lack cultured representatives. Many of these candidate phyla are composed of microorganisms with minimalistic, streamlined genomes lacking some core metabolic pathways, which may contribute to their resistance to growth in pure culture. Here we analyzed single-cell genomes and metagenome bins to show that the "Candidate phylum Rokubacteria," formerly known as SPAM, represents an interesting exception, by having large genomes (6-8 Mbps), high GC content (66-71%), and the potential for a versatile, mixotrophic metabolism. We also observed an unusually high genomic heterogeneity among individual Rokubacteria cells in the studied samples. These features may have contributed to the limited recovery of sequences of this candidate phylum in prior cultivation and metagenomic studies. Our analyses suggest that Rokubacteria are distributed globally in diverse terrestrial ecosystems, including soils, the rhizosphere, volcanic mud, oil wells, aquifers, and the deep subsurface, with no reports from marine environments to date.

基金

国家自然科学基金项目“旱地麦田蓄水保墒技术下土壤线虫群落的时空分布特征”(31901478)
国家现代农业产业技术体系建设专项(CARS-07)
黄土高原特色作物优质高效生产省部共建协同创新中心(SBGJXTZX)
山西省回国留学人员科研资助项目(2022-109)
PDF(2714 KB)

Accesses

Citation

Detail

段落导航
相关文章

/