农业生态环境-土壤微生物合辑Agro-ecosystem & Environment—Soil microbe
|A comprehensive analysis of the response of the fungal community structure to long-term continuous cropping in three typical upland crops
LIU Hang1, 2*, PAN Feng-juan1*, HAN Xiao-zeng1, SONG Feng-bin1, ZHANG Zhi-ming1, YAN Jun1, XU Yan-li1
1 National Observation Station of Hailun Agro-ecology System/Key Laboratory of Mollisols Agroecology, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin 150081, P.R.China
2 University of Chinese Academy of Sciences, Beijing 100049, P.R.China
Abstract Certain agricultural management practices are known to affect the soil microbial community structure; however, knowledge of the response of the fungal community structure to the long-term continuous cropping and rotation of soybean, maize and wheat in the same agroecosystem is limited. We assessed the fungal abundance, composition and diversity among soybean rotation, maize rotation and wheat rotation systems and among long-term continuous cropping systems of soybean, maize and wheat as the effect of crop types on fungal community structure. We compared these fungal parameters of same crop between long-term crop rotation and continuous cropping systems as the effect of cropping systems on fungal community structure. The fungal abundance and composition were measured by quantitative real-time PCR and Illumina MiSeq sequencing. The results revealed that long-term continuous soybean cropping increased the soil fungal abundance compared with soybean rotation, and the fungal abundance was decreased in long-term continuous maize cropping compared with maize rotation. The long-term continuous soybean cropping also exhibited increased soil fungal diversity. The variation in the fungal community structure among the three crops was greater than that between long-term continuous cropping and rotation cropping. Mortierella, Guehomyces and Alternaria were the most important contributors to the dissimilarity of the fungal communities between the continuous cropping and rotation cropping of soybean, maize and wheat. There were 11 potential pathogen and 11 potential biocontrol fungi identified, and the relative abundance of most of the potential pathogenic fungi increased during the long-term continuous cropping of all three crops. The relative abundance of most biocontrol fungi increased in long-term continuous soybean cropping but decreased in long-term continuous maize and wheat cropping. Our results indicate that the response of the soil fungal community structure to long-term continuous cropping varies based upon crop types.
Received: 31 October 2018
|Fund: This study was funded by the National Key Research and Development Program of China (2016YFD02003009-6 and 2016YFD0300806), the National Natural Science Foundation of China (41771327 and 41571219) and the earmarked fund for China Agriculture Research System (CARS04).
Correspondence HAN Xiao-zeng, Tel: +86-451-86602940, Fax: +86-451-86603736, E-mail: firstname.lastname@example.org
|About author: LIU Hang, E-mail: email@example.com; PAN Feng-juan, E-mail: firstname.lastname@example.org; * These authors contributed equally to this study.
Cite this article:
LIU Hang, PAN Feng-juan, HAN Xiao-zeng, SONG Feng-bin, ZHANG Zhi-ming, YAN Jun, XU Yan-li.
A comprehensive analysis of the response of the fungal community structure to long-term continuous cropping in three typical upland crops. Journal of Integrative Agriculture, 19(3): 866-880.
| Acosta-Martínez V, Burow G, Zobeck T M, Allen V G. 2010. Soil microbial communities and function in alternative systems to continuous cotton. Soil Biology & Biochemistry Soil, 74, 1181–1192.
Acosta-Martínez V, Upchurch D R, Schubert A M, Porter D, Wheeler T. 2004. Early impacts of cotton and peanut cropping systems on selected soil chemical, physical, microbiological and biochemical properties. Biology and Fertility of Soils, 40, 44–54.
Adams R I, Miletto M, Taylor J W, Bruns T D. 2013. Dispersal in microbes: Fungi in indoor air are dominated by outdoor air and show dispersal limitation at short distances. ISME Journal, 7, 1262–1273.
Akiyama K, Matsuzaki K, Hayashi H. 2005. Plant sesquiterpenes induce hyphal branching in arbuscular mycorrhizal fungi. Nature, 435, 824–827.
Ayyadurai N, Kirubakaran S I, Srisha S, Sakthivel N. 2005. Biological and molecular variability of Sarocladium oryzae, the sheath rot pathogen of rice (Oryza sativa L.). Current Microbiology, 50, 319–323.
Badri D V, Vivanco J M. 2009. Regulation and function of root exudates. Plant Cell Environment, 32, 666–681.
Bai L, Cui J Q, Jie W G, Cai B Y. 2015. Analysis of the community compositions of rhizosphere fungi in soybeans continuous cropping fields. Microbiological Research, 180, 49–56.
Bateman G, Kwa?na H. 1999. Effects of number of winter wheat crops grown successively on fungal communities on wheat roots. Applied Soil Ecology, 13, 271–282.
Bernardo C C, Barreto L P, Silva C, Luz C, Arruda W, Everton K K. 2018. Conidia and blastospores of Metarhizium spp. and Beauveria bassiana s.l.: Their development during the infection process and virulence against the tick Rhipicephalus microplus. Ticks and Tick-Borne Diseases, 9, 1334–1342.
Cannon P, Buddie A, Bridge P, Neergaard E D. 2012. Lectera, a new genus of the Plectosphaerellaceae for the legume pathogen Volutella colletotrichoides. MycoKeys, 3, 23–36.
Chen M, Li X, Yang Q, Chi X, Pan L, Chen N, Yang Z, Wang T, Wang M, Yu S L. 2012. Soil eukaryotic microorganism succession as affected by continuous cropping of peanut-pathogenic and beneficial fungi were selected. PLoS ONE, 7, e40659.
Chen S, Liu X. 2005. Control of the soybean cyst nematode by the fungi Hirsutella rhossiliensis and Hirsutella minnesotensis in greenhouse studies. Biological Control, 32, 208–219.
Edgar R C. 2013. UPARSE: Highly accurate OTU sequences from microbial amplicon reads. Nature Methods, 10, 996–998.
Ennin S A, Clegg M D. 2001. Effect of soybean plant populations in a soybean and maize rotation. Agronomy Journal, 93, 396–403.
Finlay B J. 2002. Global dispersal of free-living microbial eukaryote species. Science, 296, 1061–1063.
Gil S V, Meriles J, Conforto C, Basanta M, Radl V, Hagnd A, Schloter M, March G J. 2011. Response of soil microbial communities to different management practices in surface soils of a soybean agroecosystem in Argentina. European Journal of Soil Biology, 47, 55–60.
Guo Z Y, Kong C H, Wang J G, Wang Y F. 2011. Rhizosphere isoflavones (daidzein and genistein) levels and their relation to the microbial community structure of mono-cropped soybean soil in field and controlled conditions. Soil Biology & Biochemistry, 43, 2257–2264.
Henkes G J, Jousset A, Bonkowski M, Thorpe M R, Scheu S, Lanoue A, Schurr U, Rose U S R. 2011. Pseudomonas fluorescens CHA0 maintains carbon delivery to Fusarium graminearum-infected roots and prevents reduction in biomass of barley shoots through systemic interactions. Journal of Experimental Botany, 62, 4337–4344.
Hilton S, Bennett A J, Keane G, Bending G D, Chandler D, Stobart R, Mills P. 2013. Impact of shortened crop rotation of oilseed rape on soil and rhizosphere microbial diversity in relation to yield decline. PLoS ONE, 8, 1–12.
Jasnic S, Marjanovic Z, Vidic M, Bagi F, Budakov D, Pavlovic S, Stojšin V. 2011. Pathogenic, morphological and molecular characteristics of Alternaria tenuissima from soybean. Zbornik Matice Srpske Za Prirodne Nauke, 120, 183–196.
Khan N I, Pathologist P P, Pathology P. 2001. Selection and evaluation of microorganisms for biocontrol of fusarium head blight of wheat incited by Gibberella zeae. Plant Disease, 85, 1253–1258.
Kiriga A W, Haukeland S, Kariuki G M, Coyne D L, Beek N V. 2018. Effect of Trichoderma spp. and Purpureocillium lilacinum on Meloidogyne javanica in commercial pineapple production in Kenya. Biological Control, 119, 27–32.
Koljalg U, Nilsson R H, Abarenkov K, Tedersoo L, Taylor A F S, Bahram M. 2014. Towards a unified paradigm for sequence-based identification of fungi. Molecular Ecology, 22, 5271–5277.
Koukiasas N, Pembroke B, El S, Ioannis H, Dave V. 2013. The potential of a novel formulation of the fungus Purpureocillium lilacinum to regulate beet cyst nematode. Advances in Nematology, 12, 8.
Lanoue A, Burlat V, Henkes G J, Koch I, Schurr U, Röse U S R. 2010. De novo biosynthesis of defense root exudates in response to Fusarium attack in barley. New Phytologist, 185, 577–588.
Li P P, Cao Z Y, Dong J G, Zhang L H, Jia H, Liu N, Li S H, Hao Z M, Gu S Q, Wang X Y. 2013. First report of Bipolaris papendorfii causing corn leaf spot in China. Plant Disease, 97, 1506.
Li W H, Liu Q Z. 2019. Changes in fungal community and diversity in strawberry rhizosphere soil after 12 years in the greenhouse. Journal of Integrative Agriculture, 18, 677–687.
Li X G, Ding C F, Hua K, Zhang T L, Zhang Y N, Zhao L, Yang Y R, Liu J G, Wang X X. 2014a. Soil sickness of peanuts is attributable to modifications in soil microbes induced by peanut root exudates rather than to direct allelopathy. Soil Biology & Biochemistry, 78, 149–159.
Li X G, Ding C F, Zhang T L, Wang X X. 2014b. Fungal pathogen accumulation at the expense of plant-beneficial fungi as a consequence of consecutive peanut monoculturing. Soil Biology & Biochemistry, 72, 11–18.
Li Z G, Zu C, Wang C, Yang J F, Yu H, Wu H S. 2016. Different responses of rhizosphere and non-rhizosphere soil microbial communities to consecutive Piper nigrum L. monoculture. Scientific Reports, 6, 1–8.
Ling N, Raza W, Ma J, Huang Q, Shen Q. 2011. Identification and role of organic acids in watermelon root exudates for recruiting Paenibacillus polymyxa SQR-21 in the rhizosphere. European Journal of Soil Biology, 47, 374–379.
Liu X, Herbert S J. 2002. Fifteen years of research examining cultivation of continuous soybean in northeast China: A review. Field Crops Research, 79, 1–7.
Liu X, Zhang J L, Gu T Y, Zhang W M, Shen Q R, Yin S X, Qiu H Z. 2014. Microbial community diversities and taxa abundances in soils along a seven-year gradient of potato monoculture using high throughput pyrosequencing approach. PLoS ONE, 9, 1–10.
Lu X, He M, Ding J, Siemann E. 2018. Latitudinal variation in soil biota: Testing the biotic interaction hypothesis with an invasive plant and a native congener. ISME Journal, 12, 2811–2822.
Meriles J M, Gil S V, Conforto C, Figoni G, Lovera E, March G J, Guzman C A. 2009. Soil microbial communities under different soybean cropping systems: Characterization of microbial population dynamics, soil microbial activity, microbial biomass, and fatty acid profiles. Soil & Tillage Research, 103, 271–281.
Narisawa K, Tokumasu S, Hashiba T. 1998. Suppression of clubroot formation in Chinese cabbage by the root endophytic fungus, Heteroconium chaetospira. Plant Pathology, 47, 206–210.
Nayyar A, Hamel C, Lafond G, Gossen B D, Hanson K, Germida J. 2009. Soil microbial quality associated with yield reduction in continuous-pea. Applied Soil Ecology, 43, 115–121.
Nguyen N H, Song Z, Bates S T, Branco S, Tedersoo L, Menke J, Schillinge J S, Kennedy P G. 2016. FUNGuild: An open annotation tool for parsing fungal community datasets by ecological guild. Fungal Ecology, 20, 241–248.
Parks D H, Tyson G W, Hugenholtz P, Beiko R G. 2014. STAMP: Statistical analysis of taxonomic and functional profiles. Bioinformatics, 30, 3123–3124.
Pavloua G C, Vakalounakis D J. 2005. Biological control of root and stem rot of greenhouse cucumber, caused by Fusarium oxysporum f. sp. radicis-cucumerinum, by lettuce soil amendment. Crop Protection, 24, 135–140.
Petit E, Gubler W D. 2005. Characterization of Cylindrocarpon species, the cause of black foot disease of grapevine in California. Plant Disease, 89, 1051–1059.
Qiao Y F, Miao S J, Li N, Xu Y L, Han X Z, Zhang B. 2015. Crop species affect soil organic carbon turnover in soil profile and among aggregate sizes in a Mollisol as estimated from natural 13C abundance. Plant and Soil, 392, 163–174.
RDCT (R Development Core Team). 2010. A Language and Environment for Statistical Computing. R Foundation for Statistical Computing, Vienna.
Richardson M. 2009. The ecology of the zygomycetes and its impact on environmental exposure. Clinical Microbiology and Infection, 15, 2–9.
Safrankova I. 2005. First report of Volutella pachysandricola on Pachysandra terminalis in the Czech Republic. Plant Pathology, 54, 808.
Sathiyabama M, Balasubramanian R. 2018. Protection of groundnut plants from rust disease by application of glucan isolated from a biocontrol agent Acremonium obclavatum. International Journal of Biological Macromolecules, 116, 316–319.
Santos M C V D, Curtis R H C, Abrantes I. 2014. Incidence and etiology of postharvest fungal diseases of pomegranate (Punica granatum cv. Mollar de Elche) in Spain. Phytopathologia Mediterranea, 52, 478–489.
Schmidt-Dannert C. 2016. Biocatalytic portfolio of basidiomycota. Current Opinion in Chemical Biology, 31, 41–49.
Segata N, Izard J, Waldron L, Gevers D, Miropolsky L, Garrett W S, Huttenhower C. 2011. Metagenomic biomarker discovery and explanation. Genome Biology, 12, R60.
Skibbe D S, Doehlemann G, Fernandes J, Walbot V. 2010. Genes in host and pathogen. Science, 328, 89–92.
Song X H, Pan Y, Li L Y, Wu X L, Wang Y. 2018. Composition and diversity of rhizosphere fungal community in Coptis chinensis Franch. continuous cropping fields. PLos ONE, 13, e0193811.
Tang J, Xue Z, Daroch M, Ma J. 2015. Impact of continuous Salvia miltiorrhiza cropping on rhizosphere actinomycetes and fungi communities. Annals of Microbiology, 65, 1267–1275.
Viaud M, Pasquier A, Brygoo Y. 2000. Diversity of soil fungi studied by PCR–RFLP of ITS. Mycological Research, 104, 1027–1032.
Wang H, Hwang S F, Chang K F, Gossen B D, Turnbull G D, Howard R J. 2004. Assessing resistance to spring black stem and leaf spot of alfalfa caused by Phoma spp. Canadian Journal of Plant Science, 84, 311–317.
Wu H Q, Sun L L, Liu F, Wang Z Y, Cao C W. 2018. Preparation of dry flowable formulations of Clonostachys rosea by spray drying and application for Sclerotinia sclerotiorum control. Journal of Integrative Agriculture, 17, 613–620.
Wu L K, Chen J, Wu H M, Wang J Y, Wu Y H, Lin S, Khan M U, Zhang Z Y, Lin W X. 2016. Effects of consecutive monoculture of Pseudostellaria heterophylla on soil fungal community as determined by pyrosequencing. Scientific Reports, 6, 1–10.
Wu L K, Wang J Y, Huang W M, Wu H M, Chen J, Yang Y Q, Zhang Z Y, Lin W X. 2015. Plant-microbe rhizosphere interactions mediated by Rehmannia glutinosa root exudates under consecutive monoculture. Scientific Reports, 5, 1–11.
Xu W H, Liu D, Wu F Z, Liu S W. 2015. Root exudates of wheat are involved in suppression of Fusarium wilt in watermelon in watermelon-wheat companion cropping. European Journal of Plant Pathology, 141, 209–216.
Yang R X, Gao Z G, Liu X, Yao Y, Cheng Y. 2014. Root exudates from muskmelon (Cucumis melon L.) induce autotoxicity and promote growth of Fusarium oxysporum f. sp. melonis. Allelopathy Journal, 33, 175–187.
Yuan H, Wu S, Lei Z, Rondon S I, Gao Y. 2018. Sub-lethal effects of Beauveria bassiana (Balsamo) on field populations of the potato tuberworm Phthorimaea operculella Zeller in China. Journal of Integrative Agriculture, 17, 911–918.
Yusuf C S, Chand R, Mishra V K, Joshi A K. 2016. The association between leaf malondialdehyde and lignin content and resistance to spot blotch in wheat. Journal of Phytopatholog, 164, 896–903.
Zhao Q Y, Xiong W, Xing Y Z, Sun Y, Lin X J, Dong Y P. 2018. Long-term coffee monoculture alters soil chemical properties and microbial communities. Scientific Reports, 8, 1–11.
Zhou Q, Li N, Chang K F, Hwang S F, Strelkov S E, Conner R L, McLaren D L, Fu H, Harding M W, Turnbull G D. 2018. Genetic diversity and aggressiveness of Fusarium species isolated from soybean in Alberta, Canada. Crop Protection, 105, 49–58.
Zhou X G, Wu F Z. 2012a. Dynamics of the diversity of fungal and Fusarium communities during continuous cropping of cucumber in the greenhouse. FEMS Microbiology Ecology, 80, 469–478.
Zhou X G, Wu F Z. 2012b. p-Coumaric acid influenced cucumber rhizosphere soil microbial communities and the growth of Fusarium oxysporum f. sp. cucumerinum Owen. PLoS ONE, 7, e48288.
Zhu S Y, Wang Y Z, Xu X M, Liu T M, Wu D Q, Zheng X, Tang S W, Dai Q Z. 2018. Potential use of high-throughput sequencing of soil microbial communities for estimating the adverse effects of continuous cropping on ramie (Boehmeria nivea L. Gaud). PLoS ONE, 13, e0197095.
|No Suggested Reading articles found!