ArticleBMC genomics2013
Bulk segregant RNA-seq reveals expression and positional candidate genes and allele-specific expression for disease resistance against enteric septicemia of catfish.
Article in BMC genomics, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 37 papers, 1 of them a synthesis that pooled it.
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Who cites it
37 citing papers in PubMed, 1 synthesis or guideline pooled it.
- The cytochrome P450 genes of channel catfish: their involvement in disease defense responses as revealed by meta-analysis of RNA-Seq data sets.Biochimica et biophysica acta · 2014Pooled it
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- Transcript Characteristics on the Susceptibility Difference of Bovine Respiratory Disease.International journal of genomics · 2023Article
- Allelically and Differentially Expressed Genes After Infection of Edwardsiella ictaluri in Channel Catfish as Determined by Bulk Segregant RNA-Seq.Marine biotechnology (New York, N.Y.) · 2022Article
- Bulked Segregant RNA Sequencing Revealed Difference Between Virulent and Avirulent Brown Planthoppers.Frontiers in plant science · 2022Article
- Harnessing the potential of bulk segregant analysis sequencing and its related approaches in crop breeding.Frontiers in genetics · 2022Review
- Construction of a chromosome-level genome assembly for genome-wide identification of growth-related quantitative trait loci inZoological research · 2021Article
- Identification of Candidate Genes Associated With Hypoxia Tolerance inFrontiers in genetics · 2021Article
- Weeping candidate genes screened using comparative transcriptomic analysis of weeping and upright progeny in an F1 population of Prunus mume.Physiologia plantarum · 2020Article
- The loss of function of HEL, which encodes a cellulose synthase interactive protein, causes helical and vine-like growth of tomato.Horticulture research · 2020Article
- Sex-Specific Transcriptome Sequencing of Zoea I Larvae and Identification of Sex-Linked Genes Using Bulked Segregant Analysis in Pacific White Shrimp Litopenaeus vannamei.Marine biotechnology (New York, N.Y.) · 2020Article
- Sex determination in the GIFT strain of tilapia is controlled by a locus in linkage group 23.BMC genetics · 2020Article
- Bulked Segregant RNA-Seq Reveals Distinct Expression Profiling in Chinese Wheat Cultivar Jimai 23 Responding to Powdery Mildew.Frontiers in genetics · 2020Article
- A predicted NEDD8 conjugating enzyme gene identified as aHorticulture research · 2020Article
- Transcriptome Profiling of Pacu (Frontiers in genetics · 2020Article
- Article
- Screening for differential expression of genes for resistance to Sitodiplosis mosellana in bread wheat via BSR-seq analysis.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2019Article
- Genome-wide association analysis of intra-specific QTL associated with the resistance for enteric septicemia of catfish.Molecular genetics and genomics : MGG · 2018Article
- GWAS analysis using interspecific backcross progenies reveals superior blue catfish alleles responsible for strong resistance against enteric septicemia of catfish.Molecular genetics and genomics : MGG · 2018Article
Corrections and comments
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Authors and funding
10 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundThe application of RNA-seq has accelerated gene expression profiling and identification of gene-associated SNPs in many species. However, the integrated studies of gene expression along with SNP mapping have been lacking. Coupling of RNA-seq with bulked segregant analysis (BSA) should allow correlation of expression patterns and associated SNPs with the phenotypes.
resultsIn this study, we demonstrated the use of bulked segregant RNA-seq (BSR-Seq) for the analysis of differentially expressed genes and associated SNPs with disease resistance against enteric septicemia of catfish (ESC). A total of 1,255 differentially expressed genes were found between resistant and susceptible fish. In addition, 56,419 SNPs residing on 4,304 unique genes were identified as significant SNPs between susceptible and resistant fish. Detailed analysis of these significant SNPs allowed differentiation of significant SNPs caused by genetic segregation and those caused by allele-specific expression. Mapping of the significant SNPs, along with analysis of differentially expressed genes, allowed identification of candidate genes underlining disease resistance against ESC disease.
conclusionsThis study demonstrated the use of BSR-Seq for the identification of genes involved in disease resistance against ESC through expression profiling and mapping of significantly associated SNPs. BSR-Seq is applicable to analysis of genes underlining various performance and production traits without significant investment in the development of large genotyping platforms such as SNP arrays.
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