Bulletin of Chinese Academy of Sciences (Chinese Version)
Keywords
soil microbiology; biogeography; research status; development trend
Document Type
Article
Abstract
Soil microbial biogeography is to study the spatial distribution pattern of soil microorganisms and their changes over time. Soil microbial biogeographical study can help to find out unknown biological resources in soils, to understand the mechanisms of formation and maintenance of microbial diversity in soils, and to predict the evolutional direction of terrestrial ecosystem functioning. Since the vast majority of soil microorganisms cannot be cultivated and the techniques for microbial community analysis are limited, soil microbial biogeography has lagged behind the biogeography of plants and animals for a long time. Since twenty-first century, the breakthrough of high-throughput sequencing and bioinformatics analysis has brought unprecedented opportunities for soil microbial biogeography, making it a hot spot in the field of soil biology and microbial ecology in the world. In this paper, we expatiated the present research status of soil microbial biogeography, suggested the research direction and development trend, and prospected the future research in this field.
First page
585
Last Page
592
Language
Chinese
Publisher
Bulletin of Chinese Academy of Sciences
References
Beijerinck M W. De infusies en de ontdekking der backteriën. Amsterdam: Müller, 1913.
Becking L G M B. Geobiologie of inleiding tot de milieukunde. The Hague: W P Van Stockum and Zoon, 1934.
Martiny J B H, Bohannan B J M, Brown J H, et al. Microbial biogeography: putting microorganisms on the map. Nature Reviews Microbiology, 2006, 4(2): 102-112.
Fierer N, Jackson R B. The diversity and biogeography of soil bacterial communities. Proceedings of the National Academy of Sciences of the United States of America, 2006, 103(3): 626-631.
Zhou J, Kang S, Schadt C W, et al. Spatial scaling of functional gene diversity across various microbial taxa. Proceedings of the National Academy of Sciences of the United States of America, 2008, 105(22): 7768-7773.
Chu H, Fierer N, Lauber C, et al. Soil bacterial diversity in the Arctic is not fundamentally different from that found in other biomes. Environmental Microbiology, 2010, 12(11): 2998-3006.
Griffiths R I, Thomson B C, James P, et al. The bacterial biogeography of British soils. Environmental Microbiology, 2011, 13(6): 1642-1654.
Feng Y, Grogan P, Caporaso J G, et al. pH is a good predictor of the distribution of anoxygenic purple phototrophic bacteria in Arctic soils. Soil Biology and Biochemistry, 2014, 74: 193-200.
Liu J, Sui Y, Yu Z, et al. High throughput sequencing analysis of biogeographical distribution of bacterial communities in the black soils of northeast China. Soil Biology and Biochemistry, 2014, 70: 113-122.
Xiang X, Shi Y, Yang J, et al. Rapid recovery of soil bacterial communities after wildfire in a Chinese boreal forest. Scientific Reports, 2014, 4: 3829
Chu H, Sun H, Tripathi B M, et al. Bacterial community dissimilarity between the surface and subsurface soils equals horizontal differences over several kilometers in the western Tibetan Plateau. Environmental Microbiology, 2016, 18(5): 1523-1533.
Lauber C L, Strickland M S, Bradford M A, et al. The influence of soil properties on the structure of bacterial and fungal communities across land-use types. Soil Biology and Biochemistry, 2008, 40: 2407-2415.
Rousk J, Baath E, Brookes P C, et al. Soil bacterial and fungal communities across a pH gradient in an arable soil. The ISME Journal, 2010, 4(10): 1340-1351.
Liu J, Sui Y, Yu Z, et al. Soil carbon content drives the biogeographical distribution of fungal communities in the black soil zone of northeast China. Soil Biology and Biochemistry, 2015, 83: 29-39.
Nielsen U N, Osler G H R, Campbell C D, et al. The influence of vegetation type, soil properties and precipitation on the composition of soil mite and microbial communities at the landscape scale. Journal of Biogeography, 2010, 37(7): 1317-1328.
Peay K G, Baraloto C, Fine P V. Strong coupling of plant and fungal community structure across western Amazonian rainforests. The ISME Journal, 2013, 7(9): 1852-1861.
Parniske M. Arbuscular mycorrhiza: the mother of plant root endosymbioses. Nature Review Microbiology, 2008, 6(10): 763-775.
Averill C, Turner B L, Finzi A C. Mycorrhiza-mediated competition between plants and decomposers drives soil carbon storage. Nature, 2014, 505(7484): 543-545.
Lindahl B D, Tunlid A. Ectomycorrhizal fungi -potential organic matter decomposers, yet not saprotrophs. New Phytol, 2015, 205(4): 1443-1447.
Hooper D U, Bignell D E, Brown V K, et al. Interactions between aboveground and belowground biodiversity in terrestrial ecosystems: patterns, mechanisms, and feedbacks. Bioscience, 2000, 50(12): 1049-1061.
Waldrop M P, Zak D R, Blackwood C B, et al. Resource availability controls fungal diversity across a plant diversity gradient. Ecology Letters, 2006, 9(10): 1127-1135.
Gao C, Shi N N, Liu Y X, et al. Host plant genus-level diversity is the best predictor of ectomycorrhizal fungal diversity in a Chinese subtropical forest. Molecular Ecology, 2013, 22(12):3403-3414.
Tedersoo L, Bahram M, Polme S, et al. Fungal biogeography: global diversity and geography of soil fungi. Science, 2014, 346(6213): 1256688.
Barberan A, McGuire K L, Wolf J A, et al. Relating belowground microbial composition to the taxonomic, phylogenetic, and functional trait distributions of trees in a tropical forest. Ecology Letters, 2015, 18(12): 1397-1405.
Prober S M, Leff J W, Bates S T, et al. Plant diversity predicts beta but not alpha diversity of soil microbes across grasslands worldwide. Ecology Letters, 2015, 18(1): 85-95.
Garcia P F, Loza V, Marusenko Y, et al. Temperature drives the continental-scale distribution of key microbes in topsoil communities. Science, 2013, 340(6140): 1574-1577.
Horner D M C, Carney K M, Bohannan B J M. An ecological perspective on bacterial biodiversity. Proceedings of the Royal Society B: Biological Sciences, 2004, 271(1535): 113-122.
Fuhrman J A. Microbial community structure and its functional implications. Nature, 2009, 459(7244): 193-199.
Hanson C A, Fuhrman J A, Horner D M C, et al. Beyond biogeographic patterns: processes shaping the microbial landscape. Nature Reviews Microbiology, 2012, 10(7): 497-506.
Fierer N, Carney K M, Horner D M C, et al. The biogeography of ammonia-oxidizing bacterial communities in soil. Microbial Ecology, 2009, 58(2): 435-445.
Martiny J B H, Eisen J A, Penn K, et al. Drivers of bacterial β-diversity depend on spatial scale. Proceedings of the National Academy of Sciences of the United States of America, 2011, 108(19): 7850-7854.
Gubry R C, Hai B, Quince C, et al. Niche specialization of terrestrial archaeal ammonia oxidizers. Proceedings of the National Academy of Sciences of the United States of America, 2011, 108(52): 21206-21211.
Yao H, Campbell C D, Chapman S J, et al. Multi-factorial drivers of ammonia oxidizer communities: evidence from a national soil survey. Environmental Microbiology, 2013, 15(9):2545-2556.
Likar M, Hančević K, Radić T, et al. Distribution and diversity of arbuscular mycorrhizal fungi in grapevines from production vineyards along the eastern Adriatic coast. Mycorrhiza, 2013, 23(3): 209-219.
Moebius C D J, Moebius-Clune B N, van Es H M, et al. Arbuscular mycorrhizal fungi associated with a single agronomic plant host across the landscape: community differentiation along a soil textural gradient. Soil Biology and Biochemistry, 2013, 64: 191-199.
Hazard C, Gosling P, Van D G C J, et al. The role of local environment and geographical distance in determining community composition of arbuscular mycorrhizal fungi at the landscape scale. The ISME Journal, 2013, 7(3): 498-508.
Shi Y, Grogan P, Sun H, et al. Multi-scale variability analysis reveals the importance of spatial distance in shaping Arctic soil microbial functional communities. Soil Biology and Biochemistry, 2015, 86: 126-134.
Lomolino M. Elevation gradients of species-density: historical and prospective views. Global Ecology and Biogeography, 2001, 10(1): 3-13.
McCain C M. Elevational gradients in diversity of small mammals. Ecology, 2005, 86(2): 366-372.
McCain C M. Vertebrate range sizes indicate that mountains may be'higher'in the tropics. Ecology Letters, 2009, 12(6):550-560.
Cardelus C L, Colwell R K, Watkins J E. Vascular epiphyte distribution patterns, explaining the midelevation richness peak. Journal of Ecology, 2006, 94(1): 144-156.
Bryant J A, Lamanna C, Morlon H, et al. Microbes on mountainsides, Contrasting elevational patterns of bacterial and plant diversity. Proceedings of the National Academy of Sciences of the United States of America, 2008, 105(S1):11505-11511.
Fierer N, McCain C M, Meir P, et al. Microbes do not follow the elevational diversity patterns of plants and animals. Ecology, 2011, 92(4): 797-804.
Singh D, Takahashi K, Kim M, et al. A Hump-Backed Trend in Bacterial Diversity with Elevation on Mount Fuji, Japan. Microbial Ecology, 2012, 63(2): 429-437.
Singh D, Lee C L, Kim W S, et al. Strong elevational trends in soil bacterial community composition on Mt. Halla, South Korea. Soil Biology and Biochemistry, 2014, 68: 140-149.
Yuan Y, Si G, Wang J, et al. Bacterial community in alpine grasslands along an altitudinal gradient on the Tibetan Plateau. FEMS microbiology ecology, 2014, 87(1): 121-132.
Shen C, Xiong J, Zhang H, et al. Soil pH drives the spatial distribution of bacterial communities along elevation on Changbai Mountain. Soil Biology and Biochemistry, 2013, 57:204-211.
Shen C, Liang W, Shi Y, et al. Contrasting elevational diversity patterns between eukaryotic soil microbes and plants. Ecology, 2014, 95(11): 3190-3202.
Yang T, Weisenhorn P, Gilbert J A, et al. Carbon constrains fungal endophyte assemblages along the timberline. Environmental Microbiology, 2016, 18(8): 2455-2469.
Yang Y, Gao Y, Wang S, et al. The microbial gene diversity along an elevation gradient of the Tibetan grassland. The ISME Journal, 2014, 8(2): 430-440.
Zhou J, Deng Y, Luo F, et al. Phylogenetic molecular ecological network of soil microbial communities in response to elevated CO 2. mBio, 2011, 2(4): e00122-11.
Larsen P E, Field D, Gilbert J A. Predicting bacterial community assemblages using an artificial neural network approach. Nature Methods, 2012, 9(6): 621-625.
Ladau J, Sharpton T J, Finucane M M, et al. Global marine bacterial diversity peaks at high latitudes in winter. The ISME Journal, 2013, 7(9): 1669-1677. 54 Barberán A, Dunn R R, Reich B J, et al. The ecology of microscopic life in household dust. The Proceedings of the Royal Society B, 2015, 282(1814): 20151139.
Barberán A, Dunn R R, Reich B J, et al. The ecology of microscopic life in household dust. The Proceedings of the Royal Society B, 2015, 282(1814): 20151139.
Recommended Citation
Haiyan, Chu; Yanfen, Wang; Yu, Shi; Xiaotao, Lyu; Yongguan, Zhu; and Xingguo, Han
(2017)
"Current Status and Development Trend of Soil Microbial Biogeography,"
Bulletin of Chinese Academy of Sciences (Chinese Version): Vol. 32
:
Iss.
6
, Article 5.
DOI: https://doi.org/10.16418/j.issn.1000-3045.2017.06.005
Available at:
https://bulletinofcas.researchcommons.org/journal/vol32/iss6/5