title: Transcriptional response to heat shock in liver of snow trout (Schizothorax richardsonii)--a vulnerable Himalayan Cyprinid fish.
abstract: The snow trout (Schizothorax richardsonii) belonging to family Cyprinidae, is an endemic fish of the Himalayan region. The species is tagged as vulnerable species in the IUCN red list of threatened species. The fish thrives well in snowmelt water of several streams and rivers in the region but are occasionally exposed to more than 20 °C during the summer season. Therefore, we have used deep RNA sequencing to decipher the transcriptome of snow trout and characterize the genes and molecular pathways involved in heat shock response. In this study 72,601,298 and 65,428,283 raw reads for heat-shocked and control, respectively, were obtained by Illumina paired-end sequencing technology. The de novo assembled transcriptome was tested for differential gene expression across the treatment groups. The quality of assembly was high with N75 and N50 lengths of 461 and 1274 bases, respectively. A total of 65 unique transcripts were differentially expressed in liver under heat shock and control. Annotated blast matches reveal that differentially expressed transcripts correspond to critical chaperones and molecular pathways, previously shown to be important for thermal stress in other fish species. Eight randomly selected heat-stressed responsive transcripts were also observed to be upregulated during qRT-PCR analysis. This study is the preliminary step to understanding the responses during sudden environmental changes like heat shock. The reference transcriptome database would also aid further studies on biological and physiological aspects of the snow trout under abiotic stresses.
authors.affiliation: Molecular Genetics Laboratory, ICAR-Directorate of Coldwater Fisheries Research, (Indian Council of Agricultural Research), Bhimtal-263136, Nainital, Uttarakhand, India. abarat58@hotmail.com.
authors.forename: Ashoktaru
authors.initials: A
authors.lastname: Barat
authors.affiliation: Molecular Genetics Laboratory, ICAR-Directorate of Coldwater Fisheries Research, (Indian Council of Agricultural Research), Bhimtal-263136, Nainital, Uttarakhand, India.
authors.forename: Prabhati Kumari
authors.initials: PK
authors.lastname: Sahoo
authors.affiliation: Molecular Genetics Laboratory, ICAR-Directorate of Coldwater Fisheries Research, (Indian Council of Agricultural Research), Bhimtal-263136, Nainital, Uttarakhand, India.
authors.forename: Rohit
authors.initials: R
authors.lastname: Kumar
authors.affiliation: Molecular Genetics Laboratory, ICAR-Directorate of Coldwater Fisheries Research, (Indian Council of Agricultural Research), Bhimtal-263136, Nainital, Uttarakhand, India.
authors.forename: Chirag
authors.initials: C
authors.lastname: Goel
authors.affiliation: Molecular Genetics Laboratory, ICAR-Directorate of Coldwater Fisheries Research, (Indian Council of Agricultural Research), Bhimtal-263136, Nainital, Uttarakhand, India.
authors.forename: Atul Kumar
authors.initials: AK
authors.lastname: Singh
mesh_terms: D000531:Altitude; D000818:Animals; D029941:Fish Proteins / Q000235:genetics*; D020869:Gene Expression Profiling; D063990:Gene Ontology; D006360:Heat-Shock Proteins / Q000235:genetics*; D018869:Heat-Shock Response / Q000235:genetics*; D059014:High-Throughput Nucleotide Sequencing; D006358:Hot Temperature; D007194:India; D058977:Molecular Sequence Annotation; D059467:Transcriptome; D014337:Trout / Q000235:genetics*
chemical_list: D029941:Fish Proteins; D006360:Heat-Shock Proteins
keywords: Abiotic stress; De novo assembly; Differential gene expression; RNA sequencing; Snow trout; qRT-PCR analysis
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