Transcriptome Sequencing on Fruiting Body of <i>Agaricus bisporus</i> in Developing Stages

SHI Xiao-kun; CAI Zhi-xin; GUO Zhong-jie; LU Yuan-ping; CHEN Mei-yuan; LIAO Jian-hua; WANG Ze-sheng

doi:10.19303/j.issn.1008-0384.2018.03.012

Volume 33 Issue 3

Mar. 2019

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Article Navigation > Fujian Journal of Agricultural Sciences > 2018 > 33(3): 282-287

SHI Xiao-kun, CAI Zhi-xin, GUO Zhong-jie, LU Yuan-ping, CHEN Mei-yuan, LIAO Jian-hua, WANG Ze-sheng. Transcriptome Sequencing on Fruiting Body of Agaricus bisporus in Developing Stages[J]. Fujian Journal of Agricultural Sciences, 2018, 33(3): 282-287. doi: 10.19303/j.issn.1008-0384.2018.03.012

Citation:

SHI Xiao-kun, CAI Zhi-xin, GUO Zhong-jie, LU Yuan-ping, CHEN Mei-yuan, LIAO Jian-hua, WANG Ze-sheng. Transcriptome Sequencing on Fruiting Body of Agaricus bisporus in Developing Stages[J]. Fujian Journal of Agricultural Sciences, 2018, 33(3): 282-287. doi: 10.19303/j.issn.1008-0384.2018.03.012

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Transcriptome Sequencing on Fruiting Body of Agaricus bisporus in Developing Stages

doi: 10.19303/j.issn.1008-0384.2018.03.012

The Edible Fungi Institute of Fujian Academy of Agricultural Sciences, National and Local Joint Engineering Research Center for Breeding & Cultivation of Featured Edible Fungi, Fuzhou, Fujian 350014, China

Received Date: 2017-12-12
Rev Recd Date: 2018-02-14
Publish Date: 2018-03-01

Abstract

Abstract

Samples of Agaricus bisporus As2796 fruiting bodies in 4 developmental stages were collected for transcriptome sequencing. After aligned with the reference genome sequence of the mushroom, 9 207 transcripts were identified. Among them, 393 were new genes with 164 being functionally annotated. The expression level of the genes was analyzed to differentiate the samples. The alignments showed an overlapping of 316 differentially expressed genes between the primordium and the 3 other developmental stages. An analysis and function evaluation on these genes were performed for further study on the growth and development of A. bisporus fruiting body.
- Agaricus bisporus,
- fruiting body development,
- transcriptome sequencing

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References(19)

References

[1]	王泽生, 廖剑华, 陈美元, 等.双孢蘑菇遗传育种和产业发展[J].食用菌学报, 2012, 19(3):1-14. http://www.wanfangdata.com.cn/details/detail.do?_type=perio&id=syjxb201203001
[2]	SONNENBERG A S M, BAARS J J P, GAO W, et al. Developments in breeding of Agaricus bisporus var. bisporus: progress made and technical and legal hurdles to take[J]. Applied Microbiology and Biotechnology, 2017, 101(5): 1819-1829. http://cn.bing.com/academic/profile?id=d41b0fdc09bc9f423a692b53cb345927&encoded=0&v=paper_preview&mkt=zh-cn
[3]	陈美元, 廖剑华, 李洪荣, 等. 20个双孢蘑菇核心种质的重测序初步分析[C]//中国菌物学会年会论文集. 2015: 59-67.
[4]	陈美元, 廖剑华, 李洪荣, 等.双孢蘑菇子实体发育差异蛋白质组分析[J].菌物学报, 2015, 34(6):1153-1164. http://mall.cnki.net/magazine/Article/JWXT201305011.htm
[5]	KIM D, PERTEA G, TRAPNELL C, et al. TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions[J]. Genome Biology, 2013, 14:R36. doi: 10.1186/gb-2013-14-4-r36
[6]	FLOREA L, SONG L, SALZBERG S L. Thousands of exon skipping events differentiate among splicing patterns in sixteen human tissues[J]. F1000 Research, 2013, 2:188. http://cn.bing.com/academic/profile?id=5e70814b7adb803e5a5f7563aa078e1f&encoded=0&v=paper_preview&mkt=zh-cn
[7]	KASPER D. HANSEN, WU Z J, et al. Sequencing technology does not eliminate biological variability[J]. Nature Biotechnology, 2011, 572-573. http://cn.bing.com/academic/profile?id=3309a6845ad7f0790836654d25f18185&encoded=0&v=paper_preview&mkt=zh-cn
[8]	ALTSCHUL S F, MADDEN T L, ZHANG J, et al. Gapped BLAST and PSI BLAST: A New Generation of Protein Database Search Programs[J]. Nucleic Acids Research, 1997, 25(17): 3389-3402. doi: 10.1093/nar/25.17.3389
[9]	DENG Y Y, LI J Q, WU S F, et al. Integrated nr Database in Protein Annotation System and Its Localization[J]. Computer Engineering, 2006, 32(5):71-74. http://cn.bing.com/academic/profile?id=427de9518225b28b8d23de80d088577d&encoded=0&v=paper_preview&mkt=zh-cn
[10]	APWEILER R, BAIROCH A, WU CH, et al. UniProt: the universal protein knowledgebase[J]. Nucleic Acids Research, 2004, 32: D115-D119. doi: 10.1093/nar/gkh131
[11]	ASHBURNER M, BALL C A, BLAKE J A, et al. Gene ontology: tool for the unification of biology[J]. Nature Genetics, 2000, 25(1): 25-29. doi: 10.1038/75556
[12]	TATUSOV R L, GALPERIN M Y, NATALE D A. The COG database: a tool for genome scale analysis of protein functions and evolution[J]. Nucleic Acids Research, 2000, 28(1):33-36. doi: 10.1093/nar/28.1.33
[13]	KOONIN E V, FEDOROVA N D, JACKSON J D, et al. A comprehensive evolutionary classification of proteins encoded in complete eukaryotic genomes[J]. Genome Biology, 2004, 5(2): R7. doi: 10.1186/gb-2004-5-2-r7
[14]	KERRIGAN R W, CHALLEN M P, Burton K S. Agaricus bisporus genome sequence: a commentary[J]. Fungal Genetics and Biology, 2013, 55:2-5. doi: 10.1016/j.fgb.2013.03.002
[15]	吴小梅, 张昕, 李南羿.双孢蘑菇子实体不同发育时期的转录组分析[J].菌物学报, 2017, 36(2): 193-203. http://www.cnki.com.cn/Article/CJFDTotal-FJNX201803012.htm
[16]	CHEN M Y, LIAO J H, LI H R, et al. iTRAQ-MS/MS proteomic analysis reveals differentially expressed proteins during post-harvest maturation of the white button mushroom Agaricus bisporus[J]. Current Microbiology, 2017, 74(5):641-649. doi: 10.1007/s00284-017-1225-y
[17]	De GROOT P W, SCHAAP P J, SONNENBERG A S, et al. The Agaricus bisporus hyp A gene encodes a hydrophobin and specifically accumulates in peel tissue of mushroom caps during fruit body development[J]. Journal of Molecular Biology, 1996, 257(5):1008-1018. doi: 10.1006/jmbi.1996.0219
[18]	De GROOT P W J, ROEVEN R T P, VAN GRIENSVEN LJLD, et al. Different temporal and spatial expression of two hydrophobin-encoding genes of the edible mushroom Agaricus bisporus[J]. Microbiology, 1999, 145(5):1105-1113. doi: 10.1099/13500872-145-5-1105
[19]	LUGONES L G, BOSSCHER J S, SCHOLTMEYER K, et al. An abundant hydrophobin(ABH1) forms hydrophobic rodlet layers in Agaricus bisporus fruiting bodies[J]. Microbiology, 1996, 142(5):1321-1329. doi: 10.1099/13500872-142-5-1321