Genome Survey and Transcriptome Analysis on Mycelia and Primordia of Agaricus blazei
Agaricus blazei, a type of edible straw-rotting mushroom with somewhat sweet taste and fragrance of almonds, has attracted considerable scientific and practical attention. High-throughput Illumina PE150 and PacBio RSII platform were employed to generate a genomic sequence. De novo assembly generated...
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| Veröffentlicht in: | BioMed research international 2020, Vol.2020 (2020), p.1-12 |
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| description | Agaricus blazei, a type of edible straw-rotting mushroom with somewhat sweet taste and fragrance of almonds, has attracted considerable scientific and practical attention. High-throughput Illumina PE150 and PacBio RSII platform were employed to generate a genomic sequence. De novo assembly generated 36 contigs with 38,686,133 bp in size, containing 10,119 putative predicted genes. Additionally, we also studied transcriptional regulation of the mycelia and the primordia for exploration of genes involved in fruiting body formation. Expression profiling analysis revealed that 2,164 genes were upregulated in mycelia and 1,557 in primordia. Functional enrichment showed that differentially expressed genes associated with response to stress, ribosome biogenesis, arginine biosynthesis, and steroid biosynthesis pathway were more active in fruiting body. The genome and transcriptome analysis of A. blazei provide valuable sequence resources and contribute to our understanding of genes related to the biosynthesis pathway of polysaccharide and benzaldehyde, as well as the fruiting body formation. |
| doi_str_mv | 10.1155/2020/1824183 |
| format | Article |
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High-throughput Illumina PE150 and PacBio RSII platform were employed to generate a genomic sequence. De novo assembly generated 36 contigs with 38,686,133 bp in size, containing 10,119 putative predicted genes. Additionally, we also studied transcriptional regulation of the mycelia and the primordia for exploration of genes involved in fruiting body formation. Expression profiling analysis revealed that 2,164 genes were upregulated in mycelia and 1,557 in primordia. Functional enrichment showed that differentially expressed genes associated with response to stress, ribosome biogenesis, arginine biosynthesis, and steroid biosynthesis pathway were more active in fruiting body. The genome and transcriptome analysis of A. blazei provide valuable sequence resources and contribute to our understanding of genes related to the biosynthesis pathway of polysaccharide and benzaldehyde, as well as the fruiting body formation.</description><identifier>ISSN: 2314-6133</identifier><identifier>EISSN: 2314-6141</identifier><identifier>DOI: 10.1155/2020/1824183</identifier><identifier>PMID: 32025516</identifier><language>eng</language><publisher>Cairo, Egypt: Hindawi Publishing Corporation</publisher><subject>Agaricus blazei ; Arginine ; Benzaldehyde ; Biosynthesis ; Enzymes ; Fruit bodies ; Gene expression ; Gene regulation ; Genes ; Genetic aspects ; Genetic transcription ; Genomes ; Genomics ; Mushrooms ; Mycelia ; Nucleotide sequence ; Physiological aspects ; Polysaccharides ; Primordia ; Software ; Steroids ; Surveys ; Sweet taste ; Transcription ; Transfer RNA</subject><ispartof>BioMed research international, 2020, Vol.2020 (2020), p.1-12</ispartof><rights>Copyright © 2020 Yuan-Ping Lu et al.</rights><rights>COPYRIGHT 2020 John Wiley & Sons, Inc.</rights><rights>Copyright © 2020 Yuan-Ping Lu et al. This is an open access article distributed under the Creative Commons Attribution License (the “License”), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. http://creativecommons.org/licenses/by/4.0</rights><rights>Copyright © 2020 Yuan-Ping Lu et al. 2020</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c499t-7928c933e1e8321c075761a05edcd12642c01f77a7909f690204b394861ff02e3</citedby><cites>FETCH-LOGICAL-c499t-7928c933e1e8321c075761a05edcd12642c01f77a7909f690204b394861ff02e3</cites><orcidid>0000-0003-1473-5457 ; 0000-0003-1585-6699 ; 0000-0002-0183-7430 ; 0000-0003-2954-4733</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC6983287/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC6983287/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,727,780,784,885,4024,27923,27924,27925,53791,53793</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/32025516$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><contributor>Shi, Pengjun</contributor><contributor>Pengjun Shi</contributor><creatorcontrib>Cai, Zhi-Xin</creatorcontrib><creatorcontrib>Guo, Zhong-Jie</creatorcontrib><creatorcontrib>Liao, Jian-Hua</creatorcontrib><creatorcontrib>Lu, Yuan-Ping</creatorcontrib><creatorcontrib>Chen, Mei-Yuan</creatorcontrib><title>Genome Survey and Transcriptome Analysis on Mycelia and Primordia of Agaricus blazei</title><title>BioMed research international</title><addtitle>Biomed Res Int</addtitle><description>Agaricus blazei, a type of edible straw-rotting mushroom with somewhat sweet taste and fragrance of almonds, has attracted considerable scientific and practical attention. High-throughput Illumina PE150 and PacBio RSII platform were employed to generate a genomic sequence. De novo assembly generated 36 contigs with 38,686,133 bp in size, containing 10,119 putative predicted genes. Additionally, we also studied transcriptional regulation of the mycelia and the primordia for exploration of genes involved in fruiting body formation. Expression profiling analysis revealed that 2,164 genes were upregulated in mycelia and 1,557 in primordia. Functional enrichment showed that differentially expressed genes associated with response to stress, ribosome biogenesis, arginine biosynthesis, and steroid biosynthesis pathway were more active in fruiting body. The genome and transcriptome analysis of A. blazei provide valuable sequence resources and contribute to our understanding of genes related to the biosynthesis pathway of polysaccharide and benzaldehyde, as well as the fruiting body formation.</description><subject>Agaricus blazei</subject><subject>Arginine</subject><subject>Benzaldehyde</subject><subject>Biosynthesis</subject><subject>Enzymes</subject><subject>Fruit bodies</subject><subject>Gene expression</subject><subject>Gene regulation</subject><subject>Genes</subject><subject>Genetic aspects</subject><subject>Genetic transcription</subject><subject>Genomes</subject><subject>Genomics</subject><subject>Mushrooms</subject><subject>Mycelia</subject><subject>Nucleotide sequence</subject><subject>Physiological aspects</subject><subject>Polysaccharides</subject><subject>Primordia</subject><subject>Software</subject><subject>Steroids</subject><subject>Surveys</subject><subject>Sweet 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Survey and Transcriptome Analysis on Mycelia and Primordia of Agaricus blazei</title><author>Cai, Zhi-Xin ; Guo, Zhong-Jie ; Liao, Jian-Hua ; Lu, Yuan-Ping ; Chen, Mei-Yuan</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c499t-7928c933e1e8321c075761a05edcd12642c01f77a7909f690204b394861ff02e3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2020</creationdate><topic>Agaricus blazei</topic><topic>Arginine</topic><topic>Benzaldehyde</topic><topic>Biosynthesis</topic><topic>Enzymes</topic><topic>Fruit bodies</topic><topic>Gene expression</topic><topic>Gene regulation</topic><topic>Genes</topic><topic>Genetic aspects</topic><topic>Genetic transcription</topic><topic>Genomes</topic><topic>Genomics</topic><topic>Mushrooms</topic><topic>Mycelia</topic><topic>Nucleotide sequence</topic><topic>Physiological 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Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Cai, Zhi-Xin</au><au>Guo, Zhong-Jie</au><au>Liao, Jian-Hua</au><au>Lu, Yuan-Ping</au><au>Chen, Mei-Yuan</au><au>Shi, Pengjun</au><au>Pengjun Shi</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Genome Survey and Transcriptome Analysis on Mycelia and Primordia of Agaricus blazei</atitle><jtitle>BioMed research international</jtitle><addtitle>Biomed Res Int</addtitle><date>2020</date><risdate>2020</risdate><volume>2020</volume><issue>2020</issue><spage>1</spage><epage>12</epage><pages>1-12</pages><issn>2314-6133</issn><eissn>2314-6141</eissn><abstract>Agaricus blazei, a type of edible straw-rotting mushroom with somewhat sweet taste and fragrance of almonds, has attracted considerable scientific and practical attention. High-throughput Illumina PE150 and PacBio RSII platform were employed to generate a genomic sequence. De novo assembly generated 36 contigs with 38,686,133 bp in size, containing 10,119 putative predicted genes. Additionally, we also studied transcriptional regulation of the mycelia and the primordia for exploration of genes involved in fruiting body formation. Expression profiling analysis revealed that 2,164 genes were upregulated in mycelia and 1,557 in primordia. Functional enrichment showed that differentially expressed genes associated with response to stress, ribosome biogenesis, arginine biosynthesis, and steroid biosynthesis pathway were more active in fruiting body. 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| subjects | Agaricus blazei Arginine Benzaldehyde Biosynthesis Enzymes Fruit bodies Gene expression Gene regulation Genes Genetic aspects Genetic transcription Genomes Genomics Mushrooms Mycelia Nucleotide sequence Physiological aspects Polysaccharides Primordia Software Steroids Surveys Sweet taste Transcription Transfer RNA |
| title | Genome Survey and Transcriptome Analysis on Mycelia and Primordia of Agaricus blazei |
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