ArticleDNA research : an international journal for rapid publication of reports on genes and genomes2011
Analysis of muscle and ovary transcriptome of Sus scrofa: assembly, annotation and marker discovery.
Article in DNA research : an international journal for rapid publication of reports on genes and genomes, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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Who cites it
15 citing papers in PubMed, 41 citations in OpenAlex.
- Development of 16 novel EST-SSR markers for species identification and cross-genus amplification in sambar, sika, and red deer.PloS one · 2022Article
- Integrated analysis of miRNA and mRNA expression profiles in testes of Duroc and Meishan boars.BMC genomics · 2020Article
- RNA sequencing of kidney and liver transcriptome obtained from wild cynomolgus macaque (Macaca fascicularis) originating from Peninsular Malaysia.BMC research notes · 2018Article
- Article
- Elucidating a molecular mechanism that the deterioration of porcine meat quality responds to increased cortisol based on transcriptome sequencing.Scientific reports · 2016Article
- Histological and transcriptome analyses of testes from Duroc and Meishan boars.Scientific reports · 2016Article
- De Novo Transcriptome Assembly of the Chinese Swamp Buffalo by RNA Sequencing and SSR Marker Discovery.PloS one · 2016Article
- Whole Blood Transcriptome Sequencing Reveals Gene Expression Differences between Dapulian and Landrace Piglets.BioMed research international · 2016Article
- Comparative transcriptome analysis of grapevine in response to copper stress.Scientific reports · 2015Article
- Identification of glutathione S-transferase genes responding to pathogen infestation in Populus tomentosa.Functional & integrative genomics · 2014Article
- Comprehensive transcriptome profiling and functional analysis of the frog (Bombina maxima) immune system.DNA research : an international journal for rapid publication of reports on genes and genomes · 2014Article
- Transcriptome profiling identifies differentially expressed genes in postnatal developing pituitary gland of miniature pig.DNA research : an international journal for rapid publication of reports on genes and genomes · 2014Article
- Comparative transcriptome analysis of tomato (Solanum lycopersicum) in response to exogenous abscisic acid.BMC genomics · 2013Article
- Characterization and comparative analyses of muscle transcriptomes in Dorper and small-tailed Han sheep using RNA-Seq technique.PloS one · 2013Article
- Transcriptome analysis of silver carp (Hypophthalmichthys molitrix) by paired-end RNA sequencing.DNA research : an international journal for rapid publication of reports on genes and genomes · 2012Article
Corrections and comments
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Authors and funding
7 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Pig (Sus scrofa) is an important organism for both agricultural and medical purpose. This study aims to investigate the S. scrofa transcriptome by the use of Roche 454 pyrosequencing. We obtained a total of 558 743 and 528 260 reads for the back-leg muscle and ovary tissue each. The overall 1 087 003 reads give rise to 421 767 341 bp total residues averaging 388 bp per read. The de novo assemblies yielded 11 057 contigs and 60 270 singletons for the back-leg muscle, 12 204 contigs and 70 192 singletons for the ovary and 18 938 contigs and 102 361 singletons for combined tissues. The overall GC content of S. scrofa transcriptome is 42.3% for assembled contigs. Alternative splicing was found within 4394 contigs, giving rise to 1267 isogroups or genes. A total of 56 589 transcripts are involved in molecular function (40 916), biological process (38 563), cellular component (35 787) by further gene ontology analyses. Comparison analyses showed that 336 and 553 genes had significant higher expression in the back-leg muscle and ovary each. In addition, we obtained a total of 24 214 single-nucleotide polymorphisms and 11 928 simple sequence repeats. These results contribute to the understanding of the genetic makeup of S. scrofa transcriptome and provide useful information for functional genomic research in future.
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