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  • 11
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    Introducing genetic markers to identify and distinguish five species of Cyprinidae in the Caspian Sea using PCR-RFLP (2018)
    Details
    Publication Date: 2021-05-19
    Description: Cyprinids are the main and most significant bony fishes found in the Caspian Sea. In this study, 15 specimens of Rutilus fish kutum (Kamensky, 1901), 10 specimens of Barbus capito (Gueldenstaedtii, 1772), 10 specimens of Bream Abramis brama (Linnaeus, 1785), 10 specimens of Redlip, Aspius aspius, and 15 specimens of Kora volba, Rutilus rutilus caspius, were collected from commercial catch stations. DNA from all specimens was extracted using the phenol-chloroform method in 500[1.1 tubes and amplified using PCR method with a pair of primers with cytochrom b gene sequence of Kora volba. For RFLP analysis, PCR products of cytochorome gene b (1117 bp) from each species were digested with five restriction enzymes under suitable conditions of incubation. DNA bands were visualized by gel electrophoresis (polyacrylamide) and staining with silver nitrate. Five enzyme Rsa I, Hinf I. Hha I , Hine II, and Mbo I showed polymorphism. Genotypes obtained from digestion of enzymes Rsa I, Hinf I, Hha I showed haplotypes AAAAA for Barbus capito, BBBB for R. rutilus caspius, CCCC for Bream Abramis brama, DDDD for Aspius aspius and EEEE for R. frisii kutum. Each of these haplotypes serves as a genetic marker for the species and is of significant importance in distinguishing them.
    Description: Published
    Keywords: Cyprinidae ; PCR-RFLP ; Barbus capito ; Bream Abramis brama ; Aspius aspius ; Rutilus rutilus caspius ; Aspius aspius ; Polyacrylamide ; Molecular Marke
    Repository Name: AquaDocs
    Type: Journal Contribution , Refereed
    Format: pp.49-58
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  • 12
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    Introducing genetic markers to identify and distinguish five species of Cyprinidae in the Caspian Sea using PCR-RFLP (2018)
    Details
    Publication Date: 2021-05-19
    Description: Cyprinids are the main and most significant bony fishes found in the Caspian Sea. In this study, 15 specimens of Rutilus frisii kutum (Kamensky, 1901), 10 specimens of Barbus capito (Gueldenstaedtii, 1772), 10 specimens of Bream Abramis brama (Linnaeus, 1785), 10 specimens of Redlip, Aspius aspius, and 15 specimens of Kora volba, Rutilus rutilus caspius, were collected from commercial catch stations. DNA from all specimens was extracted using the phenol-chloroform method in 500gl tubes and amplified using PCR method with a pair of primers with cytochrome b gene sequence of Kora volba. For RFLP analysis, PCR products of cytochrome gene b (1117 bp) from each species were digested with five restriction enzymes under suitable conditions of incubation. DNA bands were visualized by gel electrophoresis (polyacrylamide) and staining with silver nitrate. Five enzyme Rsa I, Hinf I, Hhal, Hinc II, and Mbo I showed polymorphism. Genotypes obtained from digestion of enzymes Rsa I, Hinfl, flha I showed haplotypes AAAAA for Barbus capito, BBBB for R. rutilus caspius, CCCC for Bream Abramis brama, DDDD for Aspius aspius and EEEE for R. frisii kutum. Each of these haplotypes serves as a genetic marker for the species and is of significant importance in distinguishing them.
    Description: Published
    Keywords: Genetic ; Species ; Cyprinidae ; PCR-RFLP ; Molecular Marker ; Rutilus frisii kutum ; Specimens ; Barbus capito ; Bream Abramis brama ; Aspius aspius ; Rutilus rutilus ; DNA ; Enzymes
    Repository Name: AquaDocs
    Type: Journal Contribution , Refereed
    Format: pp.49-58
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  • 13
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    Study of mtDNA vatriation of Russian sturgeon population from the south Caspian Sea using RFLP analysis of PCR amplified ND5/6 gene regions (2018)
    Details
    Publication Date: 2021-05-19
    Description: PCR-based mtDNA analysis (RFLP) was used for the study of population differentiation in the Russian sturgeon (Acipenser gueldenstaedti). The mtDNA ND5/6 gene regions were amplified using PCR techniques followed by RFLP analysis. 39 different composite haplotypes were detected among 62 specimens. 29 haplotypes were rare occuring only once in two regions (west and east areas of the Southern Caspian Sea). The average nucleotide and haplotype diversity within populations were estimated to be 0.028727 0.00 and 0.9645 00042 respectively and divergence between populations to be 0.052%. A highly significant differences were observed in the distribution of haplotypes between the west and east areas.
    Description: Published
    Keywords: Acipenser gueldenstaedtii ; mtDNA ; Russian sturgeon ; South Caspian Sea ; RFLP analysis ; PCR ; ND5/6
    Repository Name: AquaDocs
    Type: Journal Contribution , Refereed
    Format: pp.13-36
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  • 14
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    The PCR-RFLP investigation of Clupeonella cultriventris from the South Caspian Sea, Iran (2018)
    Details
    Publication Date: 2021-05-19
    Description: Fifty common kilka (Clupeonella culiriventris) specimens from Guilan Province and fifty others from Mazandaran Province, South Caspian Sea were collected to study genetic variation in the fish using Restricted Fragment Length Polymorphism (RFLP) of the mIDNA. DNA was extracted from fm tissue by phenol-chloroform method. The PCR products were digested using 13 restriction endo-nuclease enzymes. Five out of thirteen restriction enzymes were polymorphic resulting in nine different haplotypes. The haplotype divergence ranged from 0.0073 to 0.0369. The mean value of haplotype and nucleotide diversity among populations was 0.7339±0.0006 and 0.0098±0.0, respectively. The nucleotide divergence among populations was 0.01%. Statistically significant differences in haplotype frequencies among all samples were observed (P〈0.01). Therefore, we conclude the populations are different genetically.
    Description: Published
    Keywords: Kilka ; Clupeonella cultriventris ; PCR-RFLP ; Haplotypes ; Fish ; DNA
    Repository Name: AquaDocs
    Type: Journal Contribution , Refereed
    Format: pp.119-128
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  • 15
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    Population structure of Acipenser nudiventris in the south coast of Caspian Sea and Ural River using Microsatellite method (2018)
    Details
    Publication Date: 2021-05-19
    Description: Population structure of Ship sturgeon, Acipenser nudiventris, from the south coast of Caspian Sea and Ural River was investigated using Microsatellite method. For this reason, 73 specimens of the sturgeon were collected from five locations in two sampling regions the first consisted of Bandar Anzali, SefidRud River, Babolsar, and Gorgan, and the second was Ural River. Four SSR markers were used in this investigation, of which 5 loci produced DNA band, with three of them being polymorph. One primer showed two loci with one of them being polymorph and another was monomorphic). Average expected and observed heterozygosity was 0.86 and 0.75 respectively. Genetic variation was assessed through analysis of molecular variance (AMOVA) that indicated almost all of the variance in data namely %94 (P less than or equal to 0.03) was within locations.
    Description: Published
    Keywords: Rivers ; Anadromous species ; Nucleotide sequence ; Induced breeding ; Primers ; Ships ; Sampling ; Coasts ; Acipenser ; Acipenser nudiventris ; Brackish ; Population Genetics ; DNA ; Genetic diversity ; Population structure ; Genotypes ; Biopolymorphism ; Aquaculture techniques ; Fish ; Sturgeon ; Populations ; Sexual Reproduction
    Repository Name: AquaDocs
    Type: Journal Contribution , Refereed
    Format: pp.99-108
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  • 16
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    Investigation of population genetic structure of common carp (Cyprinus carpio) in the south Caspian Sea using mtDNA Method (PCR-RFLP) (2018)
    Details
    Publication Date: 2021-05-19
    Description: The population genetic structure of common carp (Cyprinus carpio) was examined on 260 specimens from Tajan and Gorgan Rivers, Gorgan Gulf, Anzali Lagoon and other regions in east, middle and west of south Caspian Sea. DNA was extracted from fin tissue by phenol-chlorophorm method with a concentration of 50-100 nanograms. PCR was performed using ND-3/4 and ND-5/6 genes. The PCR products of samples were digested by 15 restriction endonuclease enzymes. The digested products accompanied with standard marker (50 pb). To measure fragment size, samples were run on a 6% vertical poyacrylamide gel. The fragments were visualized by silver staining of the polyacrylamide gel. Statistical analysis of data was performed by Reap software. We detected 14 and 12 different haplotypes in ND-3/4 and ND-5/6 genes of common carp. The mean values of haplotype diversity among populations were 0.59 and 0.48 and the average nucleotide diversity was 0.06 and 0.03 for ND3/4 and ND5/6 genes. Also, the mean values of nucleotide divergence among populations were 0.05% and 0.02%, respectively. The haplotype distribution was not significantly different between Mazandaran and Guilan coasts, Mazandaran and Golestan coasts, Golestan coast and Gorgan Gulf and Gorgan River (P less than or equal to 0.05), but this divergence was significantly different between Guilan region and Anzali Lagoon, Guilan and Golestan coasts, Tajan and Gorgan Rivers (P less than or equal to 0.05). We found a significant genetic divergence between some of the samples such that three genetic groups of common carp were identified in the southern part of the Caspian Sea.
    Description: Published
    Keywords: Nucleotide sequence ; Polymerase chain reaction ; Coastal lagoons ; Nucleotides ; Rivers ; Data processing ; Statistical analysis ; Computer programs ; Software ; Haplotypes ; Endonuclease ; Cyprinus carpio ; Brackish ; Population genetics ; Genetics ; DNA ; Freshwater fish ; Enzymes ; Lead ; Lagoons ; Mitochondrial DNA ; Coasts
    Repository Name: AquaDocs
    Type: Journal Contribution , Refereed
    Format: pp.89-102
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  • 17
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    The PCR-RFLP investigation of Clupeonella cultriventris from the South Caspian Sea, Iran (2018)
    Details
    Publication Date: 2021-05-19
    Description: Fifty common kilka (Clupeonella cultriventris) specimens from Guilan Province and fifty others from Mazandaran Province, South Caspian Sea were collected to study genetic variation in the fish using Restricted Length Polymorphism (RFLP) of the mtDNA. DNA was from fin tissue by phenol-chloroform method. The PCR products were digested using 13 restriction endo-nuclease enzymes. Five out of thirteen restriction enzymes were polymorphic resulting in nine different haplotypes. The haplotype divergence ranged from 0.0073 to 0.0369. The mean value of haplotype and nucleotide diversity among populations was 0.7339±0.0006 and 0.0098±0.0, respectively. The nucleotide divergence among populations was 0.01%. Statistically siB1ificant differences in haplotype frequencies among all samples were observed (P〈0.01). Therefore, we conclude the populations are different genetically.
    Description: Published
    Keywords: Kilka ; Clupeonella cultriventris ; PCR- RFLP ; Specimens ; mtDNA ; Tissue ; Haplotype ; Nucleotide
    Repository Name: AquaDocs
    Type: Journal Contribution , Refereed
    Format: pp.119-128
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  • 18
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    Molecular population study on Penaeus semisulcatus from the Persian Gulf and Oman Sea using Cytochrom Oxidase Subunit I (COI) gene by RFLP method (2018)
    Details
    Publication Date: 2021-05-19
    Description: The objective of this investigation was molecular population study on Penaeus semisulcatus stocks from the Persian Gulf and Oman Sea. Samples were collected using trawling method from Hormuz (40 individuals) and Bushehr (35 individuals) regions. The DNA of samples were extracted using phenol and chloroform method and then were simplified using a pair premier of Cytochrom Oxidase Subunit I (COI) gene sequence by a thermal cycler. Nine restriction enzyme were Used to digest the larger gene region that five of them (Alu I, Hinf I, Hinc I I, Hpa I I and Rca I) appeared Polymorphic patterns. Reap software and X2 test were used to analyses the RFLP data. The average nucleotide diversity arid haplotype diversity among the population were 0.0345720 ± 0.0011952 and 0.28590±0.08174 and nucleotide divergence among population, being studied, is supposed to be 8.5%. Considering the result dispersion of haplotypes in two region showed a significant difference and this is an evidence for proving the variety of the stocks.
    Description: Published
    Keywords: Molecular population ; Penaeus semisulcatus ; Cytochrom Oxidase Subunit I ; COI ; Gene ; RFLP method ; DNA ; Phenol ; Chloroform ; Enzyme ; Polymorphic ; Haplotype ; Nucleotide
    Repository Name: AquaDocs
    Type: Journal Contribution , Refereed
    Format: pp.15-30
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  • 19
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    Molecular evaluation of the population of Silver Pomfret (Pampus argenteus) in the Persian Gulf and Oman Sea (Iranian &Kuwaiti waters) (2018)
    Details
    Publication Date: 2021-05-19
    Description: A total of 162 specimens of Silver Pomfret (Pampus argenteus) including 38 samples from Kuwait and 124 samples from Iran (24 from Khouzestan, 24 from Chabahar and 38 from Bushehr) were examined for their DNA structure. DNA from all specimens was extracted using the Phenol-chloroform and amplified using PCR method with a pair of primers with ND sub(2) gene sequence. The PCR products were about 1300 (bp) for all samples. For RFLP analysis 16 restriction enzymes Bcl I, Pst I, Acc II, BseN I, Tru I, Dra I, Alw26 I, Hin6 I, Tas I, Alu I, EcoR I ,Hae III, Hinc II, Hind III, Hinf I and Hpa II were used. DNA bands were visualized by Gel electrophoresis (polyacrylamid) and staining with silver nitrate. Out of 16 enzymes, four showed polymorphism that includedg Hinf I, Alu I, Acc II, and Hpa II. Of the total 162 samples, 13 showed polymorphic patterns. Six haplotypes were rare occurring only once, but others which were only four different kinds occurred more than once. The REAP test gave no significant result for the examined regions (P〉0.05). Therefore, our results revealed that the Pampus argenteus stocks in the Persian Gulf and Oman Sea of Iranian and Kuwaiti waters constitute a unique population.
    Description: Published
    Keywords: Electrophoresis ; Nucleotide sequence ; Polymerase chain reaction ; Primers ; Staining ; Pampus argenteus ; Molecular structure ; Population genetics ; DNA ; Enzymes ; Marine ; Biopolymorphism
    Repository Name: AquaDocs
    Type: Journal Contribution , Refereed
    Format: pp.45-56
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  • 20
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    Introducing genetic markers for identification and separation of 4 species of Persian Gulf and Oman Sea fishes using PCR- RFLP method (2018)
    Details
    Publication Date: 2021-05-19
    Description: In order to introduce genetic markers of four species of fishes, 80 samples of each species, i.e. Parastromateus niger, Scomberomorus comersoniannus, Trachionotus mookalee and Caranx para were collected. DNA was extracted using phenol- chloroform method . The target gene ( cytochrome b ) was amplified by Thermal cycle (PCR) and the PCR product size estimated 1105 bp. In this research out of 27 DNAase enzymes which were used for PCR product enzyme digesting 8 enzymes(Bam HI, Alw 261, Rsa I, Mbo I, Alu I, Hinf I, Dpn I, Dde I) have cut side on target DNA and three enzymes of them Alu I, Hinf I and Mbo I showed polymorphism genetic differences while other enzymes displayed similar patterns. Variarion of haplotypes from four species are as follows: BAA for P. niger, AAB for T. mookalee, ABA for C. para, and ACA for S. comersonianus. So it is possible to claim that each of the above Haplotypes may be used as genetic markers for each of the species.
    Description: Published
    Keywords: Separation ; Polymerase chain reaction ; Phenotypic variations ; Cytochrome b ; DDE ; Trachionotus mookalee ; Parastromateus niger ; Caranx para ; Carangidae ; Scomberomorus comersoniannus ; Scomberomorus ; Genetics ; DNA ; Enzymes ; Biomarkers ; Identification ; Phenotypes ; Chloroform ; Haplotypes ; Gene polymorphism ; Genetic markers ; Caranx ; Marine
    Repository Name: AquaDocs
    Type: Journal Contribution , Refereed
    Format: pp.1-14
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