scholarly journals Genetic diversity and population structure of the African catfish, Clarias gariepinus (Burchell, 1822) in Kenya: implication for conservation and aquaculture

2017 ◽  
Vol 147 (2) ◽  
Author(s):  
James E. Barasa ◽  
Sinebongo Mdyogolo ◽  
Romulus Abila ◽  
Johannes Paul Grobler ◽  
Robert A. Skilton ◽  
...  
Keyword(s):  
Population Structure ◽  
Control Region ◽  
Clarias Gariepinus ◽  
Natural Populations ◽  
Fish Farm ◽  
African Catfish ◽  
Important Species ◽  
Loop Control ◽  
D Loop ◽  
Hardy Weinberg Equilibrium

African catfish, Clarias gariepinus, is an important species in aquaculture and fisheries in Kenya. Mitochondrial D-loop control region was used to determine genetic variation and population structure in samples of C. gariepinus from 10 sites including five natural populations (Lakes Victoria (LVG), Kanyaboli (LKG), Turkana (LTA), Baringo (LBA) and Jipe (LJP), and five farms (Sangoro Aquaculture Center (SAN), Sagana Aquaculture Centre (SAG), University of Eldoret Fish Farm (UoE), Kibos Fish Farm (KIB), and Wakhungu Fish Farm (WKU)) in Kenya. Similarly, samples from eight localities (four natural populations: LVG/LKG, LTA, LBA, and four farmed: SAN, SAG, KIB, UoE) were genotyped using six microsatellite DNA loci. For the D-loop control region, samples from natural sites exhibited higher numbers of haplotypes and haplotype diversities compared to farmed samples, and 88.2% of haplotypes were private. All except LJP and LTA shared haplotypes, and the highest number of shared haplotypes (8) was detected in KIB. The 68 haplotypes we found in 268 individuals grouped into five phylogenetic clades: LVG/LKG, LTA, LBA, LJP and SAG. Haplotypes of farmed C. gariepinus mostly have haplotypes typical of LVG/LKG, and some shared haplotypes of the LBA population. Microsatellite analysis showed farmed samples have higher numbers of alleles than natural samples, but higher observed and expected heterozygosity levels were found in samples of natural populations. Fifteen pair-wise comparisons had significantly different FST values. All samples were in Hardy-Weinberg equilibrium. Samples from the eight localities grouped into four genetic clusters (LVG/LKG, LTA, LBA and SAG), indicating genetically distinct populations, which should be considered for aquaculture and conservation.

scholarly journals Genetic diversity and population structure of the African catfish, Clarias gariepinus (Burchell, 1822) in Kenya: implication for conservation and aquaculture – Corrigendum

2017 ◽  
Vol 147 (2) ◽  
Author(s):  
James E. Barasa ◽  
Sinebongo Mdyogolo ◽  
Romulus Abila ◽  
Johannes Paul Grobler ◽  
Robert A. Skilton ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Clarias Gariepinus ◽  
African Catfish

This Corrigendum does not have an abstract.

Characterization of Clarias gariepinus mitochondrial genome sequence and a comparative analysis with other catfishes

Biologia ◽  
2015 ◽  
Vol 70 (9) ◽  
pp. 1245-1253
Author(s):  
Chong Han ◽  
Qiang Li ◽  
Junqiu Xu ◽  
Xiufeng Li ◽  
Jianrong Huang
Keyword(s):  
Mitochondrial Genome ◽  
Control Region ◽  
Genome Sequence ◽  
Complete Mitochondrial Genome ◽  
Clarias Gariepinus ◽  
African Catfish ◽  
Protein Coding ◽  
Mitochondrial Genome Sequence ◽  
Complete Mitochondrial Genome Sequence

Abstract Clarias gariepinus is an economically important fish belonging to Siluriformes. In order to understand the characterization of catfishes, the complete mitochondrial genome sequence of the African catfish C. gariepinus was determined using 17 pairs of primers. The complete mitogenome is 16,508 bp in length and contains 37 mitochondrial genes (13 protein-coding, two rRNA, and 22 tRNA genes) and a control region as in most other fishes. Moreover, a comparison of C. gariepinus with Clarias batrachus, Clarias fuscus and Clarias sp. NM-2010 indicated that the four mitogenomics were similar in length, total nucleotide compositions and codon usage patterns, but different in 13 protein-coding genes, control region and other aspects. The complete mitochondrial genome sequence of C. gariepinus would contribute to better understanding of population genetics, conservation, biogeography and evolution of this species.

scholarly journals Characterization of the mitochondrial Huso huso genome with new aspects into its organization with presence of tandem repeat in the 12SrRNA and tRNA-Glu

2021 ◽  
Author(s):  
Khadijeh Dadkhah ◽  
Ghodrat Rahimi Mianji ◽  
Ali barzegar ◽  
Ayoub Farhadia
Keyword(s):  
Mitochondrial Genome ◽  
Control Region ◽  
Tandem Repeat ◽  
Duplication Event ◽  
Regulatory Elements ◽  
Repeat Sequence ◽  
Loop Control ◽  
Coding Regions ◽  
Genes Encoding ◽  
D Loop

Abstract The sturgeon group is an economically important group in the world due to the production of caviar, and they are also a suitable old species for researching on the evolution of the mitochondrial genome. In H.huso sequencing, we identified a distinct genome organization relative to other species that has never been reported before. In this specie, the mitochondrial genome consisted of 13 genes encoding proteins, 22tRNA and 2rRNA, and two non-coding regions that followed other vertebrates. In addition, H.huso had an pseudo tRNA-Glu between ND6 and Cytb and also had a 52-nucleotide tandem repeat with two replications in the 12SrRNA. This duplication event is related to the slipped strand during replication, which can remain in the strand as a result of mispairing during replication. Furthermore, an 82 bp repeat sequence with three replications was observed in the D-loop control region, which is usually visible in different species. Regulatory elements are also visible in the control region of the mitochondrial genome that include termination sequences and conserved regulatory blocks. Genomic compounds showed the highest conservation in terms of rRNA and tRNA, while protein-encoded genes and non-encoded regions had the highest divergence. The mitochondrial genome was phylogenetically assayed using 13 protein-encoding genes.

scholarly journals Development and characterization of 49 novel microsatellite markers in the African catfish, Clarias gariepinus (Burchell, 1822)

2019 ◽  
Vol 46 (6) ◽  
pp. 6599-6608
Author(s):  
Dóra Kánainé Sipos ◽  
Katalin Bakos ◽  
Ágnes Ősz ◽  
Árpád Hegyi ◽  
Tamás Müller ◽  
...  
Keyword(s):  
Microsatellite Markers ◽  
Molecular Genetic ◽  
Clarias Gariepinus ◽  
Genetic Data ◽  
Economic Importance ◽  
Inbreeding Coefficient ◽  
African Catfish ◽  
Important Species ◽  
Molecular Genetic Data

Abstract The African catfish or sharp tooth catfish (Clarias gariepinus) is one of the important species (due to its high environmental tolerance and easily controllable breeding habits) that can significantly contribute to reducing hunger in many countries. It is farmed in numerous African, Asian, and European countries. Moreover, during the last decades its production has grown significantly worldwide. Currently, following the carp, this species is produced in the second largest volume in Hungary. Despite its economic importance, the stocks have been maintained without genetic control or guided breeding. Molecular genetic data on bred populations or strains are very limited. In order to investigate the genetic structure of the stocks, 49 new microsatellite markers were characterized and tested on 32 individuals from a Hungarian farmed stock. All these markers were polymorph. The number of alleles per locus ranged from 2 to 11. The observed and expected overall heterozygosities were between 0.519 and 0.544 respectively and the overall inbreeding coefficient (Fis: 0.063) does not reveal the presence of inbreeding. However, 63% of the markers showed significant deviations from HWE. The results suggest that the maintenance of genetic variation within the stock require high attention in closed bred populations. These new markers provide a useful tool for population and conservation genetics of natural and bred African catfish populations.

scholarly journals MORPHOLOGICAL CHARACTERIZATION OF THE AFRICAN CATFISH (Clarias gariepinus BURCHELL, 1822) STRAINS INTRODUCED TO INDONESIA

2015 ◽  
Vol 10 (2) ◽  
pp. 91 ◽  
Author(s):  
Bambang Iswanto ◽  
Imron Imron ◽  
Rommy Suprapto ◽  
Huria Marnis
Keyword(s):  
Clarias Gariepinus ◽  
Principal Component ◽  
Morphological Characterization ◽  
The Other ◽  
African Catfish ◽  
Genetic Purity ◽  
Important Species ◽  
Morphometric Characterization ◽  
Meristic Data

African catfish (Clarias gariepinus Burchell, 1822) has become a great important species in Indonesian aquaculture. Several strains of the African catfish have been introduced to Indonesia for aquaculture purposes, initiated by Dumbo strain from Taiwan in 1985, followed by Paiton strain from Thailand in 1998, then Egypt strain from Egypt in 2007, Masamo strain from Thailand in 2010 and later Kenya strain from Kenya in 2011. Since its introductions, there were no reports yet on their characterization studies. The present study was conducted to morphologically characterize the strains of African catfish introduced to Indonesia, i.e. Dumbo, Paiton, Egypt, Masamo, and Kenya strains. Morphometric and meristic data obtained were analyzed using Principal Component Analysis. Results of the morphometric characterization in the present study revealed that Dumbo, Paiton, Masamo, and Kenya strains were indistinguishable, while morphometric characteristic of Egypt strain was more or less different from those of the other strains. On the other hand, results of the meristic characterization suggested that meristic characteristics of all strains of the introduced African catfish were not different from each other. Therefore, to keep the genetic purity of those introduced strains, they should be properly maintained in isolated places.

scholarly journals Effects of cadmium on acetylcholinesterase activities and histopathology of African catfish (Clarias gariepinus) from contaminated fish farm in Mae Sot District, Tak Province, Thailand

ScienceAsia ◽  
2020 ◽  
Vol 46 (5) ◽  
pp. 611
Author(s):  
Supisara Suwanprasert ◽  
Supap Saenphet ◽  
Wararut Buncharoen ◽  
Songyot Kullasoot ◽  
Nattawut Sareein ◽  
...  
Keyword(s):  
Clarias Gariepinus ◽  
Fish Farm ◽  
African Catfish ◽  
Tak Province

scholarly journals The very low genetic variability on Aceh Tamiang’s (Indonesia) population of Painted Terrapin (Batagur borneoensis) inferred by cytochrome oxidase I (CO I) and D-loop (control region)

2020 ◽  
Vol 21 (6) ◽  
Author(s):  
JOKO GUNTORO ◽  
WIRDATETI ◽  
AWAL RIYANTO
Keyword(s):  
Genetic Variability ◽  
Cytochrome Oxidase ◽  
Control Region ◽  
Haplotype Diversity ◽  
Cytochrome Oxidase I ◽  
Conservation Strategy ◽  
Wild Populations ◽  
Loop Control ◽  
Loop Region ◽  
D Loop

Abstract. Guntoro J, Wirdateti, Riyanto A. 2020. The very low genetic variability on Aceh Tamiang’s (Indonesia) population of Painted Terrapin (Batagur borneoensis) inferred by cytochrome oxidase I (CO I) and D-loop (control region). Biodiversitas 21: 2514-2520. Populations of Batagur borneoensis have been rapidly decreasing due to the harvesting of adults and eggs for food and the construction of beachfront property causing the loss of nesting areas. By the new Indonesian regulation, since 2018 this turtle listed in the protected animal. Meanwhile, IUCN placed as critically endangered which indicating a high risk of extinction in the wild in the near future (www.iucnredlist.org). We used cytochrome oxidase I (COI) and control region D-loop region to investigate intraspecific variations on Aceh Tamiang’s population of painted terrapin, Batagur borneoensis. DNA material was gathered from saliva collected from 90 juveniles in the reaching facility of Sukacita Lestari Indonesia Foundation which hatched from eggs collected from December 2015 to April 2016 from 30 nests on beach area at Aceh Tamiang. The population showed very low genetic variability (haplotype diversity, Hd = 0.457 based on COI and 0.405 based on D-loop; nucleotide diversity, π = 0.00089 based on COI and 0.00076 based on D-loop). So, we suggested that further study such as more exploration to find new wild populations and genetic study across wild populations should be done to reveal genetic variability and genetic structure which important to decide the conservation strategy. At the time for Aceh Tamiang's population, the ranching conservation program should be maintained at least to keep the successful hatchling from hunters and natural predators both during eggs laying and hatching.

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