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Mohanta SK, Swain SK, Das SP, Bit A, Das G, Pradhan S, Sundaray JK, Jayasankar P, Ninawe AS, Das P. Complete mitochondrial genome sequence of E. suratensis revealed by next generation sequencing. Mitochondrial DNA B Resour 2016; 1:746-747. [PMID: 33473612 PMCID: PMC7800130 DOI: 10.1080/23802359.2016.1176877] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The complete mitochondrial genome of Etroplus suratensis, the Green chromide cichlid, was determined for the first time through NGS method. The genome is 16,467 bp (Accession no. KU301747) in length and consisted of 13 protein-coding genes, 22 tRNA genes, 2 rRNA genes and one control region. Organization of genes and their order are in accordance with other vertebrates. The overall base composition on plus strand was A: 28.3%, G: 15.2%, C: 30.9%, T: 25.6%, and the A + T content 53.9%. The control region contains a putative termination-associated sequence and three conserved sequence blocks. This mitogenome sequence data would play an important role in population genetics and phylogenetics of cichlid fish of India.
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Affiliation(s)
- Sudip K Mohanta
- Department of Zoology, Banabhumi (Degree) Mahavidyalaya, Rangamatia, Odisha, India
| | - Subrat K Swain
- Fish Genetics and Biotechnology Division, ICAR-Central Institute of Freshwater Aquaculture, Bhubaneswar, Odisha, India
| | - Sofia P Das
- Fish Genetics and Biotechnology Division, ICAR-Central Institute of Freshwater Aquaculture, Bhubaneswar, Odisha, India
| | - Amrita Bit
- Fish Genetics and Biotechnology Division, ICAR-Central Institute of Freshwater Aquaculture, Bhubaneswar, Odisha, India
| | - Gargee Das
- Fish Genetics and Biotechnology Division, ICAR-Central Institute of Freshwater Aquaculture, Bhubaneswar, Odisha, India
| | - Sanghamitra Pradhan
- Fish Genetics and Biotechnology Division, ICAR-Central Institute of Freshwater Aquaculture, Bhubaneswar, Odisha, India
| | - Jitendra K Sundaray
- Fish Genetics and Biotechnology Division, ICAR-Central Institute of Freshwater Aquaculture, Bhubaneswar, Odisha, India
| | - P Jayasankar
- Fish Genetics and Biotechnology Division, ICAR-Central Institute of Freshwater Aquaculture, Bhubaneswar, Odisha, India
| | - A S Ninawe
- Department of Biotechnology, Goverment of India, New Delhi, India
| | - Paramananda Das
- Fish Genetics and Biotechnology Division, ICAR-Central Institute of Freshwater Aquaculture, Bhubaneswar, Odisha, India
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Sahoo P, Swaminathan TR, Abraham TJ, Kumar R, Pattanayak S, Mohapatra A, Rath S, Patra A, Adikesavalu H, Sood N, Pradhan P, Das B, Jayasankar P, Jena J. Detection of goldfish haematopoietic necrosis herpes virus (Cyprinid herpesvirus-2) with multi-drug resistant Aeromonas hydrophila infection in goldfish: First evidence of any viral disease outbreak in ornamental freshwater aquaculture farms in India. Acta Trop 2016; 161:8-17. [PMID: 27172876 DOI: 10.1016/j.actatropica.2016.05.004] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/05/2016] [Revised: 05/05/2016] [Accepted: 05/06/2016] [Indexed: 01/04/2023]
Abstract
This outbreak report details of a mortality event where Cyprinid herpes virus-2 (CyHV-2) was detected in association with multidrug-resistant Aeromonas hydrophila infection in goldfish, Carassius auratus, from commercial farms. The goldfish exhibited large scale haemorrhages on the body, fins and gills, lepidorthosis, necrosed gills, protruded anus and shrunken eyes. White nodular necrotic foci in spleen and kidneys were noticed, along with necrosis and fusion of gill lamellae. Transmission electron microscopy of affected tissues revealed the presence of mature virus particles. Involvement of CyHV-2 was confirmed by PCR, sequencing and observed cytopathic effect in koi carp fin cell line along with experimental infection study. A bacterium isolated from the internal organs of affected fish was found to be pathogenic Aeromonas hydrophila having resistance to more than 10 classes of antibiotics. We postulate that CyHV-2 was the primary etiological agent responsible for this outbreak with secondary infection by A. hydrophila. The experimental infection trials in Labeo rohita and koi carp by intraperitoneal challenge with CyHV-2 tissue homogenates failed to reproduce the disease in those co-cultured fish species. This is the first report of a viral disease outbreak in organised earthen ornamental fish farms in India and bears further investigation.
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Patra S, Mishra G, Dash SK, Verma DK, Nandi S, Jayasankar P, Routray P. Transplantation Worthiness of Cryopreserved Germ Cells of Indian Major Carp Rohu, <i>Labeo rohita</i>. CURR SCI INDIA 2016. [DOI: 10.18520/cs/v111/i4/739-746] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
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Anikuttan KK, Adhikari S, Kavitha M, Jayasankar P. Carbon sequestration capacity of sediments, algae, and zooplankton from fresh water aquaculture ponds. Environ Monit Assess 2016; 188:422. [PMID: 27321139 DOI: 10.1007/s10661-016-5430-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/30/2015] [Accepted: 06/14/2016] [Indexed: 06/06/2023]
Abstract
The contribution of aquaculture and allied activities to the emission of green house gases and consequently to global warming is an emerging concern among environmentalists in the recent past. However, there exists ample scope for aquaculture activities to sequester carbon and thus compensate for the carbon emissions linked to aquaculture. This article attempts to elucidate the carbon sequestration capacity of sediments, algae, and zooplankton from fresh water aquaculture ponds. The percent organic carbon in the pond sediments ranged from 0.39 to 1.31 with an average value of 0.912 ± 0.321 whereas the carbon sequestration capacity ranged from 0.442 to 1.882 MgC/ha (1 Mg = 10(6) g) with an average value of 1.018 ± 0.447 MgC/ha. In the case of zooplankton and algae from pond, the percent organic carbon was 7.688 ± 0.196 and 2.354 ± 0.047, respectively, whereas the total estimated carbon burial rate was 0.009 ± 0.005 and 0.150 ± 0.003 MgC/ha, respectively. These findings are discussed with the previous reports available at present and are found to be in comparable ranges.
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Affiliation(s)
- K K Anikuttan
- ICAR-Central Marine Fisheries Research Institute, PB.No.1603, Ernakulam North P.O, Ernakulam, Kerala state, PIN- 682018, India.
- Mandapam Regional Centre of CMFRI, Marine fisheries Post, Mandapam Camp, Ramanathapuram District, Tamilnadu, PIN -623 520, India.
| | - S Adhikari
- ICAR-Central Institute of Freshwater Aquaculture, Kausalyaganga, Bhubaneswar, Odisha, PIN-751002, India
| | - M Kavitha
- ICAR-Central Marine Fisheries Research Institute, PB.No.1603, Ernakulam North P.O, Ernakulam, Kerala state, PIN- 682018, India
| | - P Jayasankar
- ICAR-Central Institute of Freshwater Aquaculture, Kausalyaganga, Bhubaneswar, Odisha, PIN-751002, India
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Mandal B, Kumar R, Jayasankar P. Efficacy of exogenous hormone (GnRHa) for induced breeding of climbing perch Anabas testudineus (Bloch, 1792) and influence of operational sex ratio on spawning success. Anim Reprod Sci 2016; 171:114-20. [PMID: 27346586 DOI: 10.1016/j.anireprosci.2016.06.006] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2016] [Revised: 06/01/2016] [Accepted: 06/10/2016] [Indexed: 11/30/2022]
Abstract
The climbing perch, Anabas testudineus, is an air-breathing fish having great consumer preference as a food fish and is considered a prime candidate species for aquaculture. Spawning success is an important issue while using hormones for captive induced breeding. In the first experiment, a trial was conducted to assess the efficacy of a synthetic Gonadotropin Releasing Hormone analog (sGnRHa) on the spawning success of climbing perch. Female fish were administered six different doses each with a single intramuscular injection of sGnRHa hormone at 0.002 (TOD1), 0.005 (TOD2), 0.01 (TOD3), 0.015 (TOD4), 0.02 (TOD5), 0.03 (TOD6) μg/g body weight. Similarly, males were administered half of the hormone dose of females in all the respective treatment groups. The greatest (P<0.05) relative fecundity (715.13±15.0 eggs/g female body weight) and fertilization percentage rates (93.1±8.0%) occurred when female fish were treated at the 0.015μg/g body weight dose. There was a reduction in relative fecundity and hatching rate in female fish injected with the largest dose (1.5μL/g body weight) of sGnRHa. A second experiment was conducted to assess the effect of a different male-female ratio on optimum spawning success in climbing perch. For this study a different female to male ratio (1:1, 1:2, 1:3 and 1:4) and male to female ratio (1:1, 1:2 and 1:3) were used. There were a greater (P<0.05) relative fecundity (886.62±17.9 eggs/g female body weight), fertilization (98±6.7%) and hatching (99±5.4%) rates with the female to male ratio of 1:2. This indicated that the hormone dose of 0.015μg/g body weight and a female-male ratio of 1:2 are optimal for enhanced spawning success in the climbing perch.
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Affiliation(s)
- Babita Mandal
- ICAR-Central Institute of Brackishwater Aquaculture, Chennai 600028, India
| | - Rajesh Kumar
- ICAR-Central Institute of Freshwater Aquaculture, Bhubaneswar, Odisha 751002, India.
| | - P Jayasankar
- ICAR-Central Institute of Freshwater Aquaculture, Bhubaneswar, Odisha 751002, India
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Gautam A, Sharma A, Jaiswal S, Fatma S, Arora V, Iquebal MA, Nandi S, Sundaray JK, Jayasankar P, Rai A, Kumar D. Development of Antimicrobial Peptide Prediction Tool for Aquaculture Industries. Probiotics Antimicrob Proteins 2016; 8:141-9. [DOI: 10.1007/s12602-016-9215-0] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2023]
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Roy P, Panda SP, Pal A, Mishra SS, Jayasankar P, Das BK. Expression of Mx Gene in Cirrhinus mrigala (Hamilton, 1822) to OmpC Protein of Aeromonas hydrophila and Bacterial Infection. Appl Biochem Biotechnol 2015; 178:640-53. [PMID: 26487188 DOI: 10.1007/s12010-015-1899-1] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2015] [Accepted: 10/12/2015] [Indexed: 01/12/2023]
Abstract
The aims of this study were to identify alternative myxovirus (Mx) stimulatory compounds in Cirrhinus mrigala and to characterize the kinetics and intensity of their stimulated responses by semi-quantitative RT-PCR. Mx transcripts were measured in C. mrigala injected with Aeromonas OmpC (outer membrane protein) at a dose 0.4 mg/fish. At day 1, day 2, day 3, day 5, day 10, day 20 and day 30, samples were collected from kidney, spleen, liver, heart brain, gill, intestine and muscle for the study of Mx transcript and housekeeping gene β-actin. Similarly, Mx gene expression was also studied in Aeromonas hydrophila-infected fish for a period of 10 days. Mx/β-actin ratio was constitutively expressed from all the organs of OmpC-vaccinated fish. The expression was significantly highest (P ≤ 0.05) in spleen, followed by liver, kidney, intestine, gill, heart, muscle and brain. The expression was highest in day 2 except spleen (on day 3) and subsequently reduced up to day 30. Control fish also showed Mx expression. Similarly, A. hydrophila-infected fish showed Mx/β-actin ratio upregulated significantly in the spleen and kidney on day 5, liver on day 2 and intestine on day 3. This study revealed that OmpC of A. hydrophila and its infection could stimulate the antiviral Mx gene of C. mrigala.
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Affiliation(s)
- Pragyan Roy
- Fish Health Management Division, Central Institute of Freshwater Aquaculture, Kausalyaganga, Bhubaneswar, 751012, India
| | - Soumya P Panda
- Fish Health Management Division, Central Institute of Freshwater Aquaculture, Kausalyaganga, Bhubaneswar, 751012, India
| | - Arttatrana Pal
- School of Biotechnology, KIIT University, Bhubaneswar, India
| | - Sudhanshu S Mishra
- Fish Health Management Division, Central Institute of Freshwater Aquaculture, Kausalyaganga, Bhubaneswar, 751012, India
| | - P Jayasankar
- Fish Health Management Division, Central Institute of Freshwater Aquaculture, Kausalyaganga, Bhubaneswar, 751012, India
| | - Basanta K Das
- Fish Health Management Division, Central Institute of Freshwater Aquaculture, Kausalyaganga, Bhubaneswar, 751012, India.
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Das SP, Bit A, Patnaik S, Sahoo L, Meher PK, Jayasankar P, Saha TM, Patel AB, Patel N, Koringa P, Joshi CG, Agarwal S, Pandey M, Srivastava S, Kushwaha B, Kumar R, Nagpure NS, Iquebal MA, Jaiswal S, Kumar D, Jena JK, Das P. Low-depth shotgun sequencing resolves complete mitochondrial genome sequence of Labeo rohita. Mitochondrial DNA A DNA Mapp Seq Anal 2015; 27:3517-8. [PMID: 26260184 DOI: 10.3109/19401736.2015.1074197] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
Labeo rohita, popularly known as rohu, is a widely cultured species in whole Indian subcontinent. In the present study, we used in-silico approach to resolve complete mitochondrial genome of rohu. Low-depth shotgun sequencing using Roche 454 GS FLX (Branford, Connecticut, USA) followed by de novo assembly in CLC Genomics Workbench version 7.0.4 (Aarhus, Denmark) revealed the complete mitogenome of L. rohita to be 16 606 bp long (accession No. KR185963). It comprised of 13 protein-coding genes, 22 tRNAs, 2 rRNAs and 1 putative control region. The gene order and organization are similar to most vertebrates. The mitogenome in the present investigation has 99% similarity with that of previously reported mitogenomes of rohu and this is also evident from the phylogenetic study using maximum-likelihood (ML) tree method. This study was done to determine the feasibility, accuracy and reliability of low-depth sequence data obtained from NGS platform as compared to the Sanger sequencing. Thus, NGS technology has proven to be competent and a rapid in-silico alternative to resolve the complete mitochondrial genome sequence, thereby reducing labors and time.
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Affiliation(s)
- Sofia P Das
- a ICAR - Central Institute of Freshwater Aquaculture , Kausalyaganga , Bhubaneswar , Odisha , India
| | - Amrita Bit
- a ICAR - Central Institute of Freshwater Aquaculture , Kausalyaganga , Bhubaneswar , Odisha , India
| | - Siddhi Patnaik
- a ICAR - Central Institute of Freshwater Aquaculture , Kausalyaganga , Bhubaneswar , Odisha , India
| | - L Sahoo
- a ICAR - Central Institute of Freshwater Aquaculture , Kausalyaganga , Bhubaneswar , Odisha , India
| | - P K Meher
- a ICAR - Central Institute of Freshwater Aquaculture , Kausalyaganga , Bhubaneswar , Odisha , India
| | - P Jayasankar
- a ICAR - Central Institute of Freshwater Aquaculture , Kausalyaganga , Bhubaneswar , Odisha , India
| | - T M Saha
- b Department of Animal Biotechnology , College of Veterinary Science and Animal Husbandry, Anand Agricultural University , Anand , Gujarat , India
| | - A B Patel
- b Department of Animal Biotechnology , College of Veterinary Science and Animal Husbandry, Anand Agricultural University , Anand , Gujarat , India
| | - Namrata Patel
- b Department of Animal Biotechnology , College of Veterinary Science and Animal Husbandry, Anand Agricultural University , Anand , Gujarat , India
| | - P Koringa
- b Department of Animal Biotechnology , College of Veterinary Science and Animal Husbandry, Anand Agricultural University , Anand , Gujarat , India
| | - C G Joshi
- b Department of Animal Biotechnology , College of Veterinary Science and Animal Husbandry, Anand Agricultural University , Anand , Gujarat , India
| | - Suyash Agarwal
- c ICAR-National Bureau of Fish Genetic Resources , Lucknow , Uttar Pradesh , India , and
| | - Manmohan Pandey
- c ICAR-National Bureau of Fish Genetic Resources , Lucknow , Uttar Pradesh , India , and
| | - Shreya Srivastava
- c ICAR-National Bureau of Fish Genetic Resources , Lucknow , Uttar Pradesh , India , and
| | - B Kushwaha
- c ICAR-National Bureau of Fish Genetic Resources , Lucknow , Uttar Pradesh , India , and
| | - Ravindra Kumar
- c ICAR-National Bureau of Fish Genetic Resources , Lucknow , Uttar Pradesh , India , and
| | - N S Nagpure
- c ICAR-National Bureau of Fish Genetic Resources , Lucknow , Uttar Pradesh , India , and
| | - M A Iquebal
- d ICAR-Indian Agricultural Statistics Research Institute , New Delhi , India
| | - Sarika Jaiswal
- d ICAR-Indian Agricultural Statistics Research Institute , New Delhi , India
| | - Dinesh Kumar
- d ICAR-Indian Agricultural Statistics Research Institute , New Delhi , India
| | - J K Jena
- c ICAR-National Bureau of Fish Genetic Resources , Lucknow , Uttar Pradesh , India , and
| | - P Das
- a ICAR - Central Institute of Freshwater Aquaculture , Kausalyaganga , Bhubaneswar , Odisha , India
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Sahoo L, Kumar S, Das SP, Patnaik S, Bit A, Sundaray JK, Jayasankar P, Das P. Complete mitochondrial genome sequence of Heteropneustes fossilis obtained by paired end next generation sequencing. Mitochondrial DNA A DNA Mapp Seq Anal 2015; 27:2485-6. [PMID: 26016883 DOI: 10.3109/19401736.2015.1033710] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
In the present study, the complete mitochondrial genome sequence of Heteropneustes fossilis is reported using massive parallel sequence technology. The complete mitogenome of H. fossilis is obtained by de novo assembly of paired end Illumina sequences using CLC Genomics Workbench version 7.0.4, which is 16,489 bp in length. It comprised of 13 protein- coding genes, 22 tRNAs, 2 rRNA genes and a putative control region along with the gene order and organization, being similar to most of vertebrates. The mitogenome in the present study has 99% similarity to the complete mitogneome sequence of H. Fossilis, as reported earlier. Phylogenetic analysis of Siluriformes depicted that Heteropneustids were closer to Clariids. The mitogenome sequence of H. fossilis contributes better understanding of population genetics, phylogenetics and evolution of Indian catfish species.
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Affiliation(s)
- Lakshman Sahoo
- a Fish Genetics and Biotechnology Division , ICAR-Central Institute of Freshwater Aquaculture , Bhubaneswar , Odisha , India and
| | - Santosh Kumar
- b Fish Conservation Division, ICAR-National Bureau of Fish Genetics Resources , Lucknow , Uttar Pradesh , India
| | - Sofia P Das
- a Fish Genetics and Biotechnology Division , ICAR-Central Institute of Freshwater Aquaculture , Bhubaneswar , Odisha , India and
| | - Siddhi Patnaik
- a Fish Genetics and Biotechnology Division , ICAR-Central Institute of Freshwater Aquaculture , Bhubaneswar , Odisha , India and
| | - Amrita Bit
- a Fish Genetics and Biotechnology Division , ICAR-Central Institute of Freshwater Aquaculture , Bhubaneswar , Odisha , India and
| | - Jitendra Kumar Sundaray
- a Fish Genetics and Biotechnology Division , ICAR-Central Institute of Freshwater Aquaculture , Bhubaneswar , Odisha , India and
| | - P Jayasankar
- a Fish Genetics and Biotechnology Division , ICAR-Central Institute of Freshwater Aquaculture , Bhubaneswar , Odisha , India and
| | - Paramananda Das
- a Fish Genetics and Biotechnology Division , ICAR-Central Institute of Freshwater Aquaculture , Bhubaneswar , Odisha , India and
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Sahoo L, Swain SK, Bej D, Das SP, Jayasankar P, Das P. Complete mitochondrial genome sequence of Labeo fimbriatus (Bloch, 1975). Mitochondrial DNA A DNA Mapp Seq Anal 2015; 27:4019-4020. [PMID: 25629503 DOI: 10.3109/19401736.2014.1003824] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
The complete mitochondrial genome of Labeo fimbriatus, the fringe-lipped carp, was determined for the first time. The genome was 16,614 bp in length and consisted of 13 protein-coding genes, 22 tRNA genes, 2 rRNA genes and one control region. Organization of genes and their order are in accordance with other vertebrates. The overall base composition on the plus strand was A: 32.35%, G: 15.46%, C: 27.54%, T: 24.647%, and the A + T content 57%. The control region contains a microsatellite, (TA)12, a putative termination-associated sequence and three conserved sequence blocks. This mitogenome sequence data would play an important role in population genetics and phylogenetics of cultivable carps of India.
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Affiliation(s)
- Lakshman Sahoo
- a Fish Genetics and Biotechnology Division , ICAR - Central Institute of Freshwater Aquaculture , Kausalyaganga , Odisha , India
| | - Subrat K Swain
- a Fish Genetics and Biotechnology Division , ICAR - Central Institute of Freshwater Aquaculture , Kausalyaganga , Odisha , India
| | - Dillip Bej
- a Fish Genetics and Biotechnology Division , ICAR - Central Institute of Freshwater Aquaculture , Kausalyaganga , Odisha , India
| | - Sofia P Das
- a Fish Genetics and Biotechnology Division , ICAR - Central Institute of Freshwater Aquaculture , Kausalyaganga , Odisha , India
| | - P Jayasankar
- a Fish Genetics and Biotechnology Division , ICAR - Central Institute of Freshwater Aquaculture , Kausalyaganga , Odisha , India
| | - Paramananda Das
- a Fish Genetics and Biotechnology Division , ICAR - Central Institute of Freshwater Aquaculture , Kausalyaganga , Odisha , India
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Sahoo L, Sahu B, Das SP, Swain SK, Bej D, Patel A, Jayasankar P, Das P. Limited genetic differentiation in Labeo rohita (Hamilton 1822) populations as revealed by microsatellite markers. BIOCHEM SYST ECOL 2014. [DOI: 10.1016/j.bse.2014.09.014] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
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Sahu B, Sahoo L, Joshi C, Mohanty P, Sundaray J, Jayasankar P, Das P. Isolation and characterization of polymorphic microsatellite loci in Indian major carp, Catla catla using next-generation sequencing platform. BIOCHEM SYST ECOL 2014. [DOI: 10.1016/j.bse.2014.09.010] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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Swain P, Nayak SK, Sasmal A, Behera T, Barik SK, Swain SK, Mishra SS, Sen AK, Das JK, Jayasankar P. Antimicrobial activity of metal based nanoparticles against microbes associated with diseases in aquaculture. World J Microbiol Biotechnol 2014; 30:2491-502. [PMID: 24888333 DOI: 10.1007/s11274-014-1674-4] [Citation(s) in RCA: 63] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/28/2013] [Accepted: 05/20/2014] [Indexed: 12/18/2022]
Abstract
The emergence of diseases and mortalities in aquaculture and development of antibiotics resistance in aquatic microbes, has renewed a great interest towards alternative methods of prevention and control of diseases. Nanoparticles have enormous potential in controlling human and animal pathogens and have scope of application in aquaculture. The present investigation was carried out to find out suitable nanoparticles having antimicrobial effect against aquatic microbes. Different commercial as well as laboratory synthesized metal and metal oxide nanoparticles were screened for their antimicrobial activities against a wide range of bacterial and fungal agents including certain freshwater cyanobacteria. Among different nanoparticles, synthesized copper oxide (CuO), zinc oxide (ZnO), silver (Ag) and silver doped titanium dioxide (Ag-TiO2) showed broad spectrum antibacterial activity. On the contrary, nanoparticles like Zn and ZnO showed antifungal activity against fungi like Penicillium and Mucor species. Since CuO, ZnO and Ag nanoparticles showed higher antimicrobial activity, they may be explored for aquaculture use.
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Affiliation(s)
- P Swain
- Fish Health Management Division, Central Institute of Freshwater Aquaculture, Kausalyaganga, Bhubaneswar, 751002, India,
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Mohapatra P, Swain R, Mishra S, Behera T, Swain P, Mishra S, Behura N, Sabat S, Sethy K, Dhama K, Jayasankar P. Effects of Dietary Nano-Selenium on Tissue Selenium Deposition, Antioxidant Status and Immune Functions in Layer Chicks. INT J PHARMACOL 2014. [DOI: 10.3923/ijp.2014.160.167] [Citation(s) in RCA: 46] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
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Bej D, Sahoo L, Das SP, Swain S, Jayasankar P, Das P. Complete mitochondrial genome sequence of Cirrhinus mrigala (Hamilton, 1822). Mitochondrial DNA 2013; 24:91-93. [PMID: 22994312 DOI: 10.3109/19401736.2012.722998] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
The complete mitochondrial genome of Cirrhinus mrigala was determined using the polymerase chain reaction. The mitogenome (16,594 bp) has the typical vertebrate mitochondrial gene arrangement, including 13 protein-coding genes, 22 tRNA genes, two rRNA genes and one control region. The overall base composition on the heavy strand was as follows: A: 32.0%, G: 15.5%, C: 28.0%, T: 24.55% and the A+T content: 56.5%. The control region contains a dinucleotide repeat motif, (TA)14, a termination-associated sequence and three conserved sequence blocks. These mitogenome sequence data would play an important role in population genetics and the molecular taxonomy of cultivable cyprinids in India.
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Affiliation(s)
- Dillip Bej
- Fish Genetics and Biotechnology Division, Central Institute of Freshwater Aquaculture, Kausalyaganga, Bhubaneswar, Odisha 751002, India
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Das SP, Bej D, Swain S, Das P, Chaudhary B, Jena J, Routray P, Swain S, Das P, Jayasankar P. Comparative and evolutionary analysis of mitochondrial genes in Indian major carps. BIOCHEM SYST ECOL 2013. [DOI: 10.1016/j.bse.2012.09.027] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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Mitra G, Jena JK, Jayasankar P, Das PC, Swain SK. Evaluation of colour development of rosy barb, Puntius conchonius (Hamilton) during ontogeny. Commun Agric Appl Biol Sci 2013; 78:279-282. [PMID: 25141690] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
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Bej D, Sahoo L, Das SP, Swain S, Jayasankar P, Das PC, Routray P, Swain SK, Jena JK, Das P. Complete mitochondrial genome sequence of Catla catla and its phylogenetic consideration. Mol Biol Rep 2012; 39:10347-54. [PMID: 23086264 DOI: 10.1007/s11033-012-1912-5] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2012] [Accepted: 10/01/2012] [Indexed: 11/25/2022]
Abstract
Complete nucleotide sequence of mitochondrial genome (mitogenome) of the Catla catla (Ostariophysi: Cypriniformes: Cyprinidae) was determined in the present study. Its length is 16,594 bp and contains 13 protein coding genes, 22 transfer RNAs, two ribosomal RNAs and one non-coding control region. Most of the genes were encoded on the H-strand, while the ND6 and eight tRNA (Gln, Ala, Asn, Cys, Tyr, Ser (UCN), Glu and Pro) genes were encoded on the L-strand. The reading frames of two pair of genes overlapped: ATPase 8 with 6 and ND4L with ND4 by seven nucleotides each. The main non-coding region was 929 bp, with three conserved sequence blocks (CSB-I, CSB-II, and CSB-III) and an unusual simple sequence repeat, (TA)(7). Phylogenetic analyses based on complete mitochondrial genome sequences were in favor of the traditional taxonomy of family Cyprinidae. In conclusion present mitogenome of Catla catla adds more information to our understanding of diversity and evolution of mitogenome in fishes.
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Affiliation(s)
- Dillip Bej
- Central Institute of Freshwater Aquaculture, Bhubaneswar, 751002 Odisha, India
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Bej D, Sahoo L, Das SP, Swain S, Jayasankar P, Das PC, Routray P, Swain SK, Jena JK, Das P. Complete mitochondrial genome of Labeo rohita. Mitochondrial DNA 2012; 23:441-3. [PMID: 22943502 DOI: 10.3109/19401736.2012.710220] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
The complete mitochondrial genome of Labeo rohita, an important cultivable fish, was determined for the first time. The genome is 16,611 bp in length and consists of 13 protein-coding genes, 22 tRNA genes, 2 rRNA genes, and one control region. The gene organisation and its order were similar to other vertebrates. The overall base composition on heavy strand was as follows A: 32.5%, G: 15.2%, C: 27.7%, T: 24.47%, and the A+T content 56.9%. The control region contains a microsatellite, (TA)(12), a putative termination-associated sequence and three conserved sequence blocks. This mitogenome sequence data would play an important role in population genetics and phylogenetics of Indian major carps.
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Affiliation(s)
- Dillip Bej
- Fish Genetics and Biotechnology Division, Central Institute of Fresh Water Aquaculture, Kausalyaganga, Bhubaneswar, Odisha 751002, India
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Darlina MN, Masazurah AR, Jayasankar P, Jamsari AFJ, Siti AMN. Morphometric and molecular analysis of mackerel (Rastrelliger spp) from the west coast of Peninsular Malaysia. Genet Mol Res 2011; 10:2078-92. [PMID: 21968625 DOI: 10.4238/vol10-3gmr1249] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Abstract
Mackerel (Scombridae; Rastrelliger) are small commercially important pelagic fish found in tropical regions. They serve as a cheap source of animal protein and are commonly used as live bait. By using a truss morphometrics protocol and RAPD analysis, we examined morphological and genetic variation among 77 individual mackerel that were caught using long lines and gillnets at 11 locations along the west coast of Peninsular Malaysia. Nineteen morphometric traits were evaluated and genetic information was estimated using five 10-base RAPD random primers. Total DNA was extracted from muscle tissue. Morphometric discriminant function analysis revealed that two morphologically distinct groups of Rastrelliger kanagurta and a single group of R. brachysoma can be found along the west coast of Peninsular Malaysia. We also found that the head-related characters and those from the anterior part of the body of Rastrelliger spp significantly contribute to stock assessment of this population. RAPD analysis showed a trend similar to that of the morphometric analysis, suggesting a genetic component to the observed phenotypic differentiation. These data will be useful for developing conservation strategies for these species.
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Affiliation(s)
- M N Darlina
- School of Biological Sciences, Universiti Sains Malaysia, Minden, Penang, Malaysia.
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Jayasankar P, Patel A, Khan M, Das P, Panda S. Mitochondrial DNA diversity and PCR-based sex determination of Irrawaddy dolphin (Orcaella brevirostris) from Chilika Lagoon, India. Mol Biol Rep 2010; 38:1661-8. [PMID: 20857220 DOI: 10.1007/s11033-010-0277-x] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2009] [Accepted: 09/02/2010] [Indexed: 11/28/2022]
Abstract
Of the only known two Lagoon populations of Irrawaddy dolphins (Orcaella) in the world, one is residing in the Chilika Lagoon in Orissa state, India. In addition to accidental deaths in gill net fishery and mechanized boat operations, there has been exploitation of the species for their oil. Extreme patchy distribution and vulnerability to becoming entangled in fishing gear has made it a focus of conservation concern. Information on genetic diversity of populations has considerable potential for informing conservation plans. The present paper reports the first genetic study of O. brevirostris from Chilika Lagoon based on mtDNA sequencing and PCR-based sex identification from 11 individuals. Control region sequence comparison showed two haplotypes and cytochrome b a single haplotype in the Chilika population of the species. Phylogenetic analysis indicated distinct clades within the Asian samples, with the Indian population showing closest genetic proximity to the haplotypes from Thailand. Sex of the animal was determined by PCR-based method. It is important to continue to examine the population discreteness and genetic variation of Irrawaddy dolphin in Chilika Lagoon vis-à-vis its global geographic distribution for formulating the conservation plans of the species.
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Affiliation(s)
- P Jayasankar
- Central Institute of Freshwater Aquaculture, Kausalyaganga, Bhubaneswar, 751 002 Orissa, India.
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Affiliation(s)
- A Patel
- Fish Genetics and Biotechnology Division, Central Institute of Freshwater Aquaculture, Bhubaneswar 751002, India
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Govindaraju GS, Jayasankar P. Taxonomic relationship among seven species of groupers (genus Epinephelus; family Serranidae) as revealed by RAPD fingerprinting. Mar Biotechnol (NY) 2004; 6:229-237. [PMID: 15136913 DOI: 10.1007/s10126-003-0021-9] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/04/2003] [Accepted: 06/20/2003] [Indexed: 05/24/2023]
Abstract
Phenotypic identification of groupers of the genus Epinephelus is based on color patterns and a suite of morphologic characters. However, these characters often show intraspecific variations and differences between juveniles and adults of the same species. The present work is an attempt to study and ratify the status of Epinephelus spp. using random amplified polymorphic DNA (RAPD) analysis based on samples drawn from southeast and southwest coasts of India. The RAPD fingerprints generated in Epinephelus diacanthus, E. areolatus, E. chlorostigma, E. bleekeri, E. coioides, E. tauvina, and E. malabaricus with 4 primers (OPA 01, OPA 07, OPF 08, and OPF 10) were consistent, reproducible, and yielded species-specific diagnostic markers in all the species. A total of 59 RAPD loci in the size range of 70 to 4500 bp were produced from all 4 arbitrary primers. An unweighted pair-group method with arithmetic mean (UPGMA) dendogram was constructed based on genetic distance values to show the genetic relationships among the 7 species. All the individuals of each species formed monophyletic species clusters. The mean intraspecies genetic distance value (0.305) was significantly lower than the interspecies value (0.365). Epinephelus malabaricus was most distantly related to E. diacanthus and E. bleekeri. The genetic relationship was very close among E. coioides, E. tauvina, and E. malabaricus and also between E. chlorostigma and E. bleekeri. Within-species genetic polymorphism was highest in E. chlorostigma (49.15%) and lowest in E. tauvina (25.42%).
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Affiliation(s)
- G S Govindaraju
- Central Marine Fisheries Research Institute, PB NO. 1603, Tatapuram PO, Cochin 682 014, India
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