Abstract：
:Transcriptome from high throughput sequencing-by-synthesis is a good resource of molecular markers. In this study, we present utility of massively parallel sequencing by synthesis for profiling the transcriptome of red pepper (Capsicum annuum L. TF68) using 454 GS-FLX pyrosequencing. Through the generation of approximately 30.63 megabases (Mb) of expressed sequence tag (EST) data with the average length of 375 base pairs (bp), 9,818 contigs and 23,712 singletons were obtained by raw reads assembly. Using BLAST alignment against NCBI non-redundant and a UniProt protein database, 30% of the tentative consensus sequences were assigned to specific function annotation, while 24% returned alignments of unknown function, leaving up to 46% with no alignment. Functional classification using FunCat revealed that sequences with putative known function were distributed cross 18 categories. All unigenes have an approximately equal distribution on chromosomes by aligning with tomato (Solanum lycopersicum) pseudomolecules. Furthermore, 1,536 high quality single nucleotide discrepancies were discovered using the Bukang mature fruit cDNA collection (dbEST ID: 23667) as a reference. Moreover, 758 simple sequence repeat (SSR) motif loci were mined from 614 contigs, from which 572 primer sets were designed. The SSR motifs corresponded to di- and tri- nucleotide motifs (27.03 and 61.92%, respectively). These molecular markers may be of great value for application in linkage mapping and association mapping research.
journal_name
Mol Biol Repjournal_title
Molecular biology reportsauthors
Lu FH,Cho MC,Park YJdoi
10.1007/s11033-011-1102-xsubject
Has Abstractpub_date
2012-03-01 00:00:00pages
3327-35issue
3eissn
0301-4851issn
1573-4978journal_volume
39pub_type
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journal_title：Molecular biology reports
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pub_type： 杂志文章
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pub_type： 杂志文章
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pub_type： 杂志文章
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pub_type： 杂志文章
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pub_type： 杂志文章
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pub_type： 杂志文章
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pub_type： 杂志文章
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pub_type： 杂志文章
doi：10.1007/s11033-008-9309-1
更新日期：2009-07-01 00:00:00
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pub_type： 杂志文章
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journal_title：Molecular biology reports
pub_type： 杂志文章
doi：10.1007/s11033-010-0244-6
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pub_type： 杂志文章,评审
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journal_title：Molecular biology reports
pub_type： 杂志文章
doi：10.1007/s11033-014-3067-z
更新日期：2014-01-01 00:00:00
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journal_title：Molecular biology reports
pub_type： 杂志文章
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更新日期：2012-12-01 00:00:00
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journal_title：Molecular biology reports
pub_type： 杂志文章,评审
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journal_title：Molecular biology reports
pub_type： 杂志文章
doi：10.1007/s11033-009-9609-0
更新日期：2010-04-01 00:00:00
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pub_type： 杂志文章
doi：10.1007/BF00778513
更新日期：1982-03-31 00:00:00
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pub_type： 杂志文章
doi：10.1007/s11033-009-9803-0
更新日期：2010-02-01 00:00:00
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journal_title：Molecular biology reports
pub_type： 杂志文章
doi：10.1007/s11033-011-0840-0
更新日期：2012-02-01 00:00:00
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journal_title：Molecular biology reports
pub_type： 杂志文章
doi：10.1007/s11033-013-2861-3
更新日期：2014-01-01 00:00:00
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journal_title：Molecular biology reports
pub_type： 杂志文章
doi：10.1007/s11033-010-0431-5
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journal_title：Molecular biology reports
pub_type： 杂志文章
doi：10.1007/s11033-019-05116-8
更新日期：2020-01-01 00:00:00
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journal_title：Molecular biology reports
pub_type： 杂志文章
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journal_title：Molecular biology reports
pub_type： 杂志文章
doi：10.1007/s11033-009-9534-2
更新日期：2010-03-01 00:00:00
