Analysis of Bacterial Diversity and Communities Associated with Tricholoma matsutake Fruiting Bodies by Barcoded Pyrosequencing in Sichuan Province, Southwest China |
Li, Qiang
(College of Life Science, Sichuan University)
Li, Xiaolin (Soil and Fertilizer Institute, Sichuan Academy of Agricultural Sciences) Chen, Cheng (Institute of plant protection, Sichuan Academy of Agricultural Sciences) Li, Shuhong (Biotechnology & Germplasm Resources Institute, Yunnan Academy of Agricultural Sciences) Huang, Wenli (Institute of Biological & Nuclear Technology, Sichuan Academy of Agricultural Sciences) Xiong, Chuan (College of Life Science, Sichuan University) Jin, Xing (Institute of Biological & Nuclear Technology, Sichuan Academy of Agricultural Sciences) Zheng, Linyong (College of Life Science, Sichuan University) |
1 | Kataoka R, Siddiqui ZA, Kikuchi J, Ando M, Sriwati R, Nozaki A, Futai K. 2012. Detecting nonculturable bacteria in the active mycorrhizal zone of the pine mushroom Tricholoma matsutake. J. Microbiol. 50: 199-206. DOI |
2 | Kawagishi H, Hamajima K, Takanami R, Nakamura T, Sato Y, Akiyama Y, et al. 2004. Growth promotion of mycelia of the Matsutake mushroom Tricholoma matsutake by Disoleucine. Biosci. Biotechnol. Biochem. 11: 2405-2407. DOI |
3 | Kilmer VJ, Alexander LT. 1949. Methods of making mechanical analysis of soils. Soil Sci. 68: 15-24. DOI |
4 | Li Q, Li XL, Huang WL, Xiong C, Yang Y, Yang ZR, Zheng LY. 2014. Community structure and diversity of entophytic bacteria in Tricholoma matsutake in Sichuan Province, Southwest China. J. Appl. Ecol. 25: 3316-3322 (in Chinese). |
5 | Kim JY, Byeon SE, Lee YG, Lee JY, Park J, Hong EK, Cho JY. 2008. Immunostimulatory activities of polysaccharides from liquid culture of pine-mushroom Tricholoma matsutake. J. Microbiol. Biotechnol. 18: 95-103. |
6 | Kim M, Yoon H, You YH, Kim YE, Woo JR, Seo Y, et al. 2013. Metagenomic analysis of fungal communities inhabiting the fairy ring zone of Tricholoma matsutake. J. Microbiol. Biotechnol. 23: 1347-1356. DOI |
7 | Kim M, Yoon H, Kim YE, Kim YJ, Kong WS, Kim JG. 2014. Comparative analysis of bacterial diversity and communities inhabiting the fairy ring of Tricholoma matsutake by barcoded pyrosequencing.J. Appl. Microbiol. 3: 699-710. DOI |
8 | Lian C, Narimatsu M, Nara K, Hogetsu T. 2006. Tricholoma matsutake in a natural Pinus densiflora forest: correspondence between above- and below-ground genets, association with multiple host trees and alteration of existing ectomycorrhizal communities. New Phytol. 171: 825-836. DOI |
9 | Lozupone C, Knight R. 2005. UniFrac: a new phylogenetic method for comparing microbial communities. Appl. Environ. Microbiol. 71: 8228-8235. DOI |
10 | Mehlich A. 1982. Comprehensive Methods in Soil Testing. North Carolina Department of Agriculture. |
11 | Murata H, Yamada A, Maruyama T, Endo N, Yamamoto K, Ohira T, Shimokawa T. 2013. Root endophyte interaction between ectomycorrhizal basidiomycete Tricholoma matsutake and arbuscular mycorrhizal tree Cedrela odorata, allowing in vitro synthesis of rhizospheric “shiro”. Mycorrhiza 23: 235-242. DOI |
12 | Shokralla S, Spall JL, Gibson JF, Hajibabaei M. 2012. Nextgeneration sequencing technologies for environmental DNA research. Mol. Ecol. 21: 1794-1805. DOI |
13 | Park MS, Oh SY, Cho HJ, Fong JJ, Cheon WJ, Lim YW. 2014. Trichoderma songyi sp. nov., a new species associated with the pine mushroom (Tricholoma matsutake). Antonie Van Leeuwenhoek 106: 593-603. DOI |
14 | Ruma K, Sunil K, Prakash HS. 2014. Bioactive potential of endophytic Myrothecium sp. isolate M1-CA-102, associated with Calophyllum apetalum. Pharm. Biol. 52: 665-676. DOI |
15 | Santos T, Cruz A, Caetano T, Covas C, Mendo S. 2015. Draft genome sequence of Pedobacter sp. strain NL19, a producer of potent antibacterial compounds. Genome Announc. DOI:10.1128/genomeA.00184-15. DOI |
16 | Streit WR, Schmitz RA. 2004. Metagenomics - the key to the uncultured microbes. Curr. Opin. Microbiol. 7: 492-498. DOI |
17 | Tara N, Afzal M, Ansari TM, Tahseen R, Iqbal S, Khan QM. 2014. Combined use of alkane-degrading and plant growthpromoting bacteria enhanced phytoremediation of diesel contaminated soil. Int. J. Phytoremediat. 16: 1268-1277. DOI |
18 | Tyurin IV. 1931. A new modification of the volumetric method of determining soil organic matter by means of chromic acid. Pedology 26: 36-47. |
19 | Tong HB, Liu XM, Tian D, Sun X. 2013. Purification, chemical characterization and radical scavenging activities of alkali-extracted polysaccharide fractions isolated from the fruit bodies of Tricholoma matsutake. World J. Microbiol. Biotechnol. 29: 775-780. DOI |
20 | Truyens S, Jambon I, Croes S, Janssen J, Weyens N, Mench M, et al. 2014. The effect of long-term CD and NI exposure on seed endophytes of Agrostis capillaris and their potential application in phytoremediation of metal-contaminated soils. Int. J. Phytoremediat. 16: 643-659. DOI |
21 | Wang Q, Garrity GM, Tiedje JM, Cole JR. 2007. Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Appl. Environ. Microbiol. 73: 5261-5267. DOI |
22 | Vaario LM, Fritze H, Spetz P, Heinonsalo J, Hanajik P, Pennanen T. 2011. Tricholoma matsutake dominates diverse microbial communities in different forest soils. Appl. Environ. Microbiol. 77: 8523-8531. DOI |
23 | Vaario LM, Kiikkila O, Hamberg L. 2013. The influences of litter cover and understorey vegetation on fruitbody formation of Tricholoma matsutake in southern Finland. Appl. Soil Ecol. 66: 56-60. DOI |
24 | Van Gevelt T. 2014. The role of state institutions in nontimber forest product commercialisation: a case study of Tricholoma matsutake in South Korea. Int. Forest. Rev. 16: 1-13. DOI |
25 | Wu LY, Wen CQ, Qin YJ, Yin HQ, Tu QC, Nostrand JDV, et al. 2015. Phasing amplicon sequencing on Illumina Miseq for robust environmental microbial community analysis. BMC Microbiol. 15: 125. DOI |
26 | Yang XF, Luedeling E, Chen GL, Hyde KD, Yang YJ, Zhou DQ, et al. 2012. Climate change effects fruiting of the prize matsutake mushroom in China. Fungal Divers. 56: 189-198. DOI |
27 | Yamada A, Endo N, Murata H, Ohta A, Fukuda M. 2014. Tricholoma matsutake Y1 strain associated with Pinus densiflora shows a gradient of in vitro ectomycorrhizal specificity with Pinaceae and oak hosts. Mycoscience 55: 27-34. DOI |
28 | Yamada A, Maeda K, Kobayashi H, Murata H. 2006. Ectomycorrhizal symbiosis in vitro between Tricholoma matsutake and Pinus densiflora seedlings that resembles naturally occurring ‘shiro’. Mycorrhiza 16: 111-116. DOI |
29 | Yang B, Wang XM, Ma HY, Jia Y, Li X, Dai CC. 2014. Effects of the fungal endophyte Phomopsis liquidambari on nitrogen uptake and metabolism in rice. Plant Growth Regul. 73: 165-179. DOI |
30 | You LJ, Gao Q, Feng MY, Yang B, Ren JY, Gu LJ, et al. 2013. Structural characterisation of polysaccharides from Tricholoma matsutake and their antioxidant and antitumour activities. Food Chem. 138: 2242-2249. DOI |
31 | You QH, Yin XL, Zhang SN, Jiang ZH. 2014. Extraction, purification, and antioxidant activities of polysaccharides from Tricholoma mongolicum Imai. Carbohydr. Polym. 99: 1-10. DOI |
32 | Caporaso JG, Kuczynski J, Stombaugh J, Bittinger K, Bushman FD, Costello EK, et al. 2010. QIIME allows analysis of high-throughput community sequencing data. Nat. Methods 7: 335-336. DOI |
33 | Alvin A, Miller KI, Neilan BA. 2014. Exploring the potential of endophytes from medicinal plants as sources of antimycobacterial compounds. Microbiol. Res. 169: 483-495. DOI |
34 | Amann RI, Ludwig W, Schleifer KH. 1995. Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol. Rev. 59: 143-169. |
35 | Amend A, Keeley S, Garbelotto M. 2009. Forest age correlates with fine-scale spatial structure of Matsutake mycorrhizas. Mycol. Res. 113: 541-551. DOI |
36 | Aschehoug ET, Callaway RM, Newcombe G, Tharayil N, Chen SY. 2014. Fungal endophyte increases the allelopathic effects of an invasive forb. Oecologia175: 285-291. DOI |
37 | Asencio G, Lavin P, Alegria K, Dominguez M, Bello H, Gonzalez-Rocha G, Gonzalez-Aravena M. 2014. Antibacterial activity of the Antarctic bacterium Janthinobacterium sp. SMN 33.6 against multi-resistant gram-negative bacteria. Electron. J. Biotechnol. 17: 1-1. DOI |
38 | Azliza IN, Hafizi R, Nurhazrati M, Salleh B. 2014. Production of major mycotoxins by Fusarium species isolated from wild grasses in peninsular Malaysia. Sains Malays. 43: 89-94. |
39 | Bremner JM, Mulvaney CS. 1982. Nitrogen-total, pp. 595-624. In Page AL (ed.). Methods of Soil Analysised. American Society of Agronomy, Wisconsin. |
40 | Brzostowski A, Bielawski L, Orlikowska A, Plichta S, Falandysz J. 2009. Instrumental analysis of metals profile in Poison Pax (Paxillus involutus) collected at two sites in Bory Tucholskie. Chem. Anal. (Warsaw) 54: 907-920. |
41 | Caporaso JG, Lauber CL, Walters WA, Berg-Lyons D, Lozupone CA, Turnbaugh PJ. 2011. Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample. Proc. Natl. Acad. Sci. USA 108: 4516-4522. DOI |
42 | Caporaso JG, Lauber CL, Walters WA, Berg-Lyons D, Huntley J, Fierer N. 2012. Ultra-high-throughput microbial community analysis on the IlluminaHiSeq and MiSeq platforms. ISME J. 6: 1621-1624. DOI |
43 | Hou YL, Ding X, Hou WR, Zhong J, Zhu HQ, Ma BX, et al. 2013. Anti-microorganism, anti-tumor, and immune activities of a novel polysaccharide isolated from Tricholoma matsutake. Pharmacogn. Mag.9: 244-249. DOI |
44 | Chang P, Gerhardt KE, Huang XD, Yu XM, Glick BR, Gerwing PD, Greenberg BM. 2014. Plant growth-promoting bacteria facilitate the growth of barley and oats in saltimpacted soil: implications for phytoremediation of saline soils. Int. J. Phytoremediat. 16: 1133-1147. DOI |
45 | Ding XA, Tang J, Cao M, Guo CX, Zhang X, Zhong J, et al. 2010. Structure elucidation and antioxidant activity of a novel polysaccharide isolated from Tricholoma matsutake. Int. J. Biol. Macromol. 2: 271-275. DOI |
46 | Deepika KM, Sudhakara R, Ramesh CU. 2013. Diversity of cultivable bacteria associated with fruiting bodies of wild Himalayan Cantharellus spp. Ann. Microbiol. 63: 845-853. DOI |
47 | Dudnik A, Bigler L, Dudler R. 2014. Production of proteasome inhibitor syringolin A by the endophyte Rhizobium sp. strain AP16.Appl. Environ. Microbiol. 80: 3741-3748. DOI |
48 | Edgar RC, Haas BJ, Clemente JC, Quince C, Knight R. 2011. UCHIME improves sensitivity and speed of chimera detection. Bioinformatics 27: 2194-2200. DOI |
49 | Handelsman J. 2004. Metagenomics: application of genomics to uncultured microorganisms. Microbiol. Mol. Biol. Rev. 68: 669-685. DOI |
50 | Hazen TH, Zhao LC, Sahl JW, Robinson G, Harris AD, Rasko DA, Johnson JK. 2014. Characterization of Klebsiella sp. strain 10982, a colonizer of humans that contains novel antibiotic resistance alleles and exhibits genetic similarities to plant and clinical Klebsiella isolates. Antimicrob. Agents Chemother. 58: 1879-1888. DOI |
51 | Iwase, K. 1997. Cultivation of mycorrhizal mushrooms. Food Rev. Int. 13: 431-442. DOI |
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