National Bureau of Fish Genetic Resources ICAR

Lucknow, India

National Bureau of Fish Genetic Resources ICAR

Lucknow, India

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Mohindra V.,National Bureau of Fish Genetic Resources ICAR | Tripathi R.K.,National Bureau of Fish Genetic Resources ICAR | Yadav P.,National Bureau of Fish Genetic Resources ICAR | Singh R.K.,National Bureau of Fish Genetic Resources ICAR | And 2 more authors.
Molecular Biology Reports | Year: 2015

Heat shock proteins (Hsps) are typically associated with stress response and tolerance. The Indian catfish, Clarias batrachus, is a freshwater air-breathing hypoxia tolerant teleost and is potentially important catfish species for aquaculture and for its economic value as food. The present study aimed at determining the transcriptional response of three Hsps, CbHsc71, CbHsp90α and CbHsp10 in hypoxia tolerant Indian catfish, C. batrachus, under experimental and natural hypoxia. The expression profile of above three genes were studied under different periods of hypoxia, through qRT-PCR. Primers were designed from ESTs obtained through SSH libraries constructed from hypoxia treated fishes. The Hsp10 ESTs and deduced protein was in silico characterized for its ORF and for its physical and chemical properties, respectively, using GeneScan, blastp, scanprosite, superfamily and other softwares. A phylogenetic tree was constructed based on deduced amino acid sequences of Hsc71, Hsp90α, Hsp90β of Homo sapiens and other fishes along with CbHsp10 protein in MEGA4. The deduced protein sequences of CbHsp10 was found to have characteristic Hsp10 family signatures, and it is proposed for inclusion of methionine in the consensus sequences of Hsp10 family signature, after the “proline” residue. At transcription level, these genes were found to be differentially regulated under hypoxia stress, in different tissues of C. batrachus. The CbHsc71 and CbHsp90α were up-regulated after short and long-term hypoxia, whereas CbHsp10 was significantly down-regulated after short-term hypoxia. The differential expression of these Hsps may play a role in protection and survival under hypoxia induced oxidative stress in C. batrachus. © 2015, Springer Science+Business Media Dordrecht.


PubMed | National Bureau of Fish Genetic Resources ICAR, Sathyabama University and Annamalai University
Type: Journal Article | Journal: Zootaxa | Year: 2015

Although among the less conspicuous members of the tropical shallow reef fauna, the caridean shrimps are not less abundant. Much scope for further study on the marine carideans of Indian waters still exists and many species must certainly remain to be discovered. Although, the recent checklist on prawn fauna of Indian waters reports 285 species of caridean shrimps (including fresh water forms) (Radhakrishnan et al, 2012). With this, the present study also contributes another report on the documentation of six species of caridean shrimps from the Gulf of Mannar and Lakshadweep waters of Indian peninsula. Out of six species Ancylomenes magnificus (Bruce), Periclimenes soror Nobili, Stegopontonia commensalis Nobili, Gnathophyllum americanum Guerin Meneville and Gnathophylloides mineri Schmitt are new to the Indian fauna. In the present paper, detailed notes on species description, color pattern, distribution, habitat and hosts were discussed.


Luhariya R.K.,National Bureau of Fish Genetic Resources ICAR | Lal K.K.,National Bureau of Fish Genetic Resources ICAR | Singh R.K.,National Bureau of Fish Genetic Resources ICAR | Mohindra V.,National Bureau of Fish Genetic Resources ICAR | And 4 more authors.
Molecular Biology Reports | Year: 2012

The present study examined partial cytochrome b gene sequence of mitochondrial DNA for polymorphism and its suitability to determine the genetic differentiation in wild Labeo rohita. The 146 samples of L. rohita were collected from nine distant rivers; Satluj, Brahmaputra, Son, Chambal Mahanadi, Rapti, Chauka, Bhagirathi and Tons were analyzed. Sequencing of 307 bp of Cyto b gene revealed 35 haplotypes with haplotype diversity 0.751 and nucleotide diversity (π) 0.005. The within population variation accounted for 84.21% of total variation and 15.79% was found to among population. The total Fst value, 0.158 (P<0.05) was found to be significant. The results concluded that the partial cyto b is polymorphic and can be a potential marker to determining genetic stock structure of L. rohita wild population. © Springer Science+Business Media B.V. 2011.


Verma D.K.,National Bureau of Fish Genetic Resources ICAR | Rathore G.,Central Institute of Fisheries Education
Journal of General and Applied Microbiology | Year: 2013

Flavobacterium columnare is currently one of the important bacterial pathogens causing columnaris disease in several farmed fish species across diverse geographies. A presumptive columnaris disease outbreak in farmed catla, Catla catla (Hamilton), was investigated with the aim of isolating and identifying the causative pathogen. F. columnare (strain RDC-1) was isolated from gills of infected fish and identified by conventional biochemical methods, and through species specific polymerase chain reaction and sequencing of the 16S rDNA for molecular identification. Strain RDC-1 belonged to genomovar II with ≥99% similarity to available 16S rDNA sequences of F. columnare, and also shared ≥70% DNA-DNA relatedness with known strains of F. columnare. Bath immersion studies of RDC-1 showed development of columnaris disease in catla fingerlings within 7 days, with a cumulative mortality of 83.3%. This is the first molecular confirmation of Flavobacterium columnare as a fish pathogen of farmed Catla catla in India.


Mohindra V.,National Bureau of Fish Genetic Resources ICAR | Tripathi R.K.,National Bureau of Fish Genetic Resources ICAR | Singh R.K.,National Bureau of Fish Genetic Resources ICAR | Lal K.K.,National Bureau of Fish Genetic Resources ICAR
Gene | Year: 2013

Hypoxia is an important environmental stressor that leads to rapid adaptive changes in metabolic organization. However, the molecular mechanisms of hypoxia tolerance in fish remain largely unknown. The present work was focused on understanding the molecular mechanisms and signaling pathways that may lead to tolerance of Clarias batrachus to hypoxic stress. Protein phosphatase 1 regulatory subunit 3C (PPP1R3C) is a new hypoxia-inducible factor (HIF) targeted gene and is regulated by HIF-1 under hypoxic conditions. Overexpression of PPP1R3C increases glycogen accumulation through activation of several enzymes and processes. In this study, for the first time, full length cDNA of PPP1R3C from C. batrachus was characterized and its expression pattern in the brain, liver, muscle and spleen under short (progressive hypoxia; PH, 1. h, 6. h and 12. h) and long-term (natural) hypoxic conditions was investigated. The complete cDNA of PPP1R3C was of 1499. bp, encoding 285 amino acid residues. The identified protein had a protein phosphatase 1 binding motif and a carbohydrate binding domain, thought to be involved in the regulation of glycogen metabolism. Short-term hypoxia exposure caused significant increase in PPP1R3C transcripts in the liver (6. h; 6.96 fold and 12. h; 3.91 fold) and muscle (progressive hypoxia; 3.46 fold), while, after long-term hypoxia exposure, significant up-regulation in the liver (7.77 fold) and spleen (6.59 fold) tissues was observed. No significant differences were observed in the brain for any time periods. Thus PPP1R3C may play an important role in the tolerance of C. batrachus to hypoxia. © 2013 Elsevier B.V.


Mohindra V.,National Bureau of Fish Genetic Resources ICAR | Tripathi R.K.,National Bureau of Fish Genetic Resources ICAR | Singh A.,National Bureau of Fish Genetic Resources ICAR | Singh B.,Chandigarh Institute of Microbial Technology
Fish and Shellfish Immunology | Year: 2013

A novel member of Cystatin superfamily was identified from Indian catfish, Clarias batrachus, in response to oxidation stress induced by environmental hypoxia. Integrated genomic approaches, expression profiling and computational techniques showed that CbCystatin had putative cystatin/monelin like domain and might be a transmembrane and/or intermediate protein in signaling pathways. CbCystatin was found to be clustered into family 2 Cystatins. At transcriptional level, its expression was significantly up-regulated in response to short as well as long periods (more than 20 fold) of hypoxia, suggesting its positive association with oxygen concentrations lower than physiological concentrations. © 2012 Elsevier Ltd.


Chaturvedi A.,National Bureau of Fish Genetic Resources ICAR | Mohindra V.,National Bureau of Fish Genetic Resources ICAR | Singh R.K.,National Bureau of Fish Genetic Resources ICAR | Lal K.K.,National Bureau of Fish Genetic Resources ICAR | And 5 more authors.
Molecular Biology Reports | Year: 2011

We examined population structure of Labeo dero (Hamilton, 1822) from different riverine locations in India using 10 polymorphic allozyme and eight microsatellite loci. For analysis, 591 different tissue samples were obtained from commercial catches covering a wide geographic range. Allozyme variability (An = 1.28-1.43, Ho = 0.029-0.071) was much lower than for microsatellites (An = 4.625-6.125, Ho = 0.538-0.633). Existence of rare alleles was found at three allozyme (MDH-2*, GPI* and PGDH *) and at two microsatellite loci (R-3* and MFW-15*). Deviation from Hardy-Weinberg equilibrium (P<0.05, after the critical probability levels were adjusted for sequential Bonferroni adjustment) could be detected at three loci (EST-1*, -2 * and XDH*) whereas, after correction for null alleles, two microsatellite loci (MFW-1*,-15 *) deviated from HWE in the river Yamuna. Fst for all the samples combined over all allozyme loci was found to be 0.059 suggesting that 5.9% of the total variation was due to genetic differentiation while microsatellite analysis yielded 0.019 which was concordant to mean Rst (0.02). Hierarchical partition of genetic diversity (AMOVA) showed that greater variability (approx. 95%) was due to within population component than between geographical regions. Based on distribution of genetic differentiation detected by both markers, at least five different genetic stocks of L. dero across its natural distribution could be identified. These results are useful for the evaluation and conservation of L. dero in natural water bodies. © Springer Science+Business Media B.V. 2010.


PubMed | National Bureau of Fish Genetic Resources ICAR and Central Agricultural University
Type: Journal Article | Journal: Genetica | Year: 2016

In higher eukaryotes, minor rDNA family codes for 5S rRNA that is arranged in tandem arrays and comprises of a highly conserved 120bp long coding sequence with a variable non-transcribed spacer (NTS). Initially the 5S rDNA repeats are considered to be evolved by the process of concerted evolution. But some recent reports, including teleost fishes suggested that evolution of 5S rDNA repeat does not fit into the concerted evolution model and evolution of 5S rDNA family may be explained by a birth-and-death evolution model. In order to study the mode of evolution of 5S rDNA repeats in Perciformes fish species, nucleotide sequence and molecular organization of five species of genus Channa were analyzed in the present study. Molecular analyses revealed several variants of 5S rDNA repeats (four types of NTS) and networks created by a neighbor net algorithm for each type of sequences (I, II, III and IV) did not show a clear clustering in species specific manner. The stable secondary structure is predicted and upstream and downstream conserved regulatory elements were characterized. Sequence analyses also shown the presence of two putative pseudogenes in Channa marulius. Present study supported that 5S rDNA repeats in genus Channa were evolved under the process of birth-and-death.


Mohindra V.,National Bureau of Fish Genetic Resources ICAR | Tripathi R.K.,National Bureau of Fish Genetic Resources ICAR | Singh R.K.,National Bureau of Fish Genetic Resources ICAR | Lal K.K.,National Bureau of Fish Genetic Resources ICAR
Molecular Biology Reports | Year: 2013

The present study aimed at characterization of three HIF-α subunits, HIF-1α -2α and -3α from hypoxiatolerant Clarias batrachus, as well as to elucidate their expression pattern under short and long-term hypoxic conditions and identification of biomarker candidate. The complete cDNAs of HIF-1α, -2α and -3α were 2,833, 4,270 and 3,256 bp in length, encoding 774, 818 and 628 amino acid residues, respectively. In C. batrachus, HIF-α subunits were structurally similar in DNA binding, dimerization, degradation and transcriptional activation domains, but differed in their oxygen-dependent degradation domains. Presence of c-Jun N-terminal kinase binding domain in HIF-α subunits was reported here for the first time in fish. In adult C. batrachus, three HIF-α mRNAs were detected in different tissues under normoxic conditions, however HIF-1α was highly expressed in all the tissues studied, in comparison to HIF-2α and -3α. Short-term hypoxia exposure caused significant increase in three HIF-α transcripts in brain, liver and head kidney, while after long-term hypoxia exposure, significant up-regulation of HIF-1α in spleen and -2α in muscle was observed and HIF-3α significantly down-regulated in head kidney. These observations suggest that the differential expression of HIF-α subunits in C. batrachus was hypoxic time period dependent and may play specialized roles in adaptive response to hypoxia. HIF-2α, with its highly elevated expression in muscle tissues, can be a robust biomarker candidate for exposure to hypoxic environment.© Springer Science+Business Media Dordrecht 2013.


PubMed | National Bureau of Fish Genetic Resources ICAR .
Type: Journal Article | Journal: The Journal of general and applied microbiology | Year: 2014

Flavobacterium columnare is currently one of the important bacterial pathogens causing columnaris disease in several farmed fish species across diverse geographies. A presumptive columnaris disease outbreak in farmed catla, Catla catla (Hamilton), was investigated with the aim of isolating and identifying the causative pathogen. F. columnare (strain RDC-1) was isolated from gills of infected fish and identified by conventional biochemical methods, and through species specific polymerase chain reaction and sequencing of the 16S rDNA for molecular identification. Strain RDC-1 belonged to genomovar II with 99% similarity to available 16S rDNA sequences of F. columnare, and also shared 70% DNA-DNA relatedness with known strains of F. columnare. Bath immersion studies of RDC-1 showed development of columnaris disease in catla fingerlings within 7 days, with a cumulative mortality of 83.3%. This is the first molecular confirmation of Flavobacterium columnare as a fish pathogen of farmed Catla catla in India.

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