Genetic diversity and structure of Oncomelania hupensis hupensis in two eco-epidemiological settings as revealed by the mitochondrial COX1 gene sequences

Manipur is one of the north eastern states of India and it is rich in freshwater fish diversity. Among the small indigenous fishes of Manipur, Pethia manipurensis is an economically important fish having both food and ornamental value. For the taxonomic placement of this species among the cyprinid fishes, molecular characterization is conducted by using mitochondrial cox1 gene sequences. Partial sequences of mito. cox1 gene of thirty seven cyprinid species were down loaded from NCBI Genbank and the nucleotide sequence 602 bp were generated from two species i.e. Pethia manipurensis and Puntius sophore for present analysis. Here total 628 characters, 144, 459, 267 and 192 were conserved, variable, parsimony informative and singleton respectively. The average nucleotide frequencies are 26.4% (A), 29% (T), 26.4% (C), and 18.2% (G). The dendogram constructed by both Neighbour-Joining and Maximum Likelihood trees resulted in similar topologies with five clusters with eight sub-clusters which can indicate the taxonomic positions of Pethia manipurensis.

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Genetic diversity of Gracilaria changii (Gracilariaceae, Rhodophyta) from west coast, Peninsular Malaysia based on mitochondrial cox1 gene analysis

Journal of Applied Phycology ◽

10.1007/s10811-010-9535-5 ◽

2010 ◽

Vol 23 (2) ◽

pp. 219-226 ◽

Cited By ~ 22

Author(s):

Yoon-Yen Yow ◽

Phaik-Eem Lim ◽

Siew-Moi Phang

Keyword(s):

Genetic Diversity ◽

West Coast ◽

Peninsular Malaysia ◽

Gene Analysis ◽

Cox1 Gene ◽

Gracilaria Changii ◽

Mitochondrial Cox1

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Genetic diversity and population structure of Plasmodium falciparum in Nigeria: insights from microsatellite loci analysis

Malaria Journal ◽

10.1186/s12936-021-03734-x ◽

2021 ◽

Vol 20 (1) ◽

Author(s):

Fehintola V. Ajogbasile ◽

Adeyemi T. Kayode ◽

Paul E. Oluniyi ◽

Kazeem O. Akano ◽

Jessica N. Uwanibe ◽

...

Keyword(s):

Genetic Diversity ◽

Plasmodium Falciparum ◽

Population Structure ◽

Microsatellite Loci ◽

Control Strategies ◽

Population Diversity ◽

Parasite Population ◽

Nested Polymerase Chain Reaction ◽

Public Health Burden ◽

Genetic Diversity And Structure

Abstract Background Malaria remains a public health burden especially in Nigeria. To develop new malaria control and elimination strategies or refine existing ones, understanding parasite population diversity and transmission patterns is crucial. Methods In this study, characterization of the parasite diversity and structure of Plasmodium falciparum isolates from 633 dried blood spot samples in Nigeria was carried out using 12 microsatellite loci of P. falciparum. These microsatellite loci were amplified via semi-nested polymerase chain reaction (PCR) and fragments were analysed using population genetic tools. Results Estimates of parasite genetic diversity, such as mean number of different alleles (13.52), effective alleles (7.13), allelic richness (11.15) and expected heterozygosity (0.804), were high. Overall linkage disequilibrium was weak (0.006, P < 0.001). Parasite population structure was low (Fst: 0.008–0.105, AMOVA: 0.039). Conclusion The high level of parasite genetic diversity and low population structuring in this study suggests that parasite populations circulating in Nigeria are homogenous. However, higher resolution methods, such as the 24 SNP barcode and whole genome sequencing, may capture more specific parasite genetic signatures circulating in the country. The results obtained can be used as a baseline for parasite genetic diversity and structure, aiding in the formulation of appropriate therapeutic and control strategies in Nigeria.

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