Monitoring the genetic effects of broodstock enhancement of silver carp (<i>Hypophthalmichthys molitrix</i>) in middle Yangtze River based on<i>cytb</i>gene and D-loop sequences

Chen, Huijuan; Wang, Dengqiang; Guo, Jie Jin; Duan, Xinbin; Liu, Shaoping; Chen, Daqing; Li, Yun

doi:10.1080/02705060.2019.1588795

Cited by 3 publications

(3 citation statements)

References 28 publications

(21 reference statements)

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“…Similarly, higher within-population nucleotide diversity and smaller betweenpopulation genetic differences were inferred from D-loop compared to Cytb. This has also been reported for other freshwater fish species such as the feather-back fish Chitala chitala (Mandal et al, 2012), snakehead Channa striata , silver carp Hypophthalmichthys molitrix (Chen et al, 2019). Although the two sequence types differ in evolution rates, we found that, in general, they both yielded positive relationships in nucleotide diversity (Table 1), K2P genetic distances (Figure 2), and F ST (Table 4).…”

Section: Comparing D-loop and Cytbsupporting

confidence: 86%

“…In various animal taxa, including fish, the D-loop generally evolves faster than mtDNA coding genes (Broughton et al, 2001;Brown et al, 1993;Moritz et al, 1987;Page & Hughes, 2010), making it a powerful marker in detecting recent divergence within a species (Grant, 2015). Compared to the Dloop, Cytb is more conserved, as documented in many fish species, such as the Amazon catfish Brachyplatystoma platynemum (Ochoa et al, 2015), feather-back fish Chitala chitala (Mandal et al, 2012), and silver carp Hypophthalmichthys molitrix (Chen et al, 2019). The combined use of mtDNA segments with unequal mutation rates reflects a broad view of the evolutionary history of the species (Ballard & Rand, 2005;Moritz et al, 1987;Page & Hughes, 2010).…”

Section: Pangasius Krempfimentioning

confidence: 99%

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Multiple genetic lineages of anadromous migratory Mekong catfish Pangasius krempfi revealed by mtDNA control region and cytochrome b

Yên

Nguyen

Tran

et al. 2023

Ecology and Evolution

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Population genetic structure of migratory fishes can reflect ecological and evolutionary processes. Pangasius krempfi is a critically important anadromous catfish in the Mekong River, and its migration pathways and genetic structure have attracted much interest. To investigate, we quantified the genetic diversity of this species using the control region (D‐loop) and Cytochrome b (Cyt b ) of the mitochondrial genome. Fish were sampled ( n = 91) along the Mekong tributaries from upstream to estuaries and coastal areas in the Mekong Delta and compared to three samples from Pakse (Laos). The D‐loop haplotype (0.941 ± 0.014) and nucleotide diversity (0.0083 ± 0.0005) were high in all populations, but that of Cyt b was low (0.331 ± 0.059 and 0.00063 ± 0.00011, respectively). No genetic difference was detected between populations, indicating strong gene flow and confirming a long migration distance for this species. Pangasius krempfi was not genetically structured according to geographical populations but was delineated into three haplogroups, suggesting multiple genetic lineages. The presence of haplogroups in each sampling location implies that migration downstream is random but parallel when the fish enter two river tributaries bifurcating from the main Mekong River. Individuals can also migrate along the coast, far from the estuaries, suggesting a longer migration path than previously reported, which is crucial for maintaining diverse genetic origin and migration pathways for P. krempfi .

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Section: Comparing D-loop and Cytbsupporting

confidence: 86%

Section: Pangasius Krempfimentioning

confidence: 99%

Multiple genetic lineages of anadromous migratory Mekong catfish Pangasius krempfi revealed by mtDNA control region and cytochrome b

Yên

Nguyen

Tran

et al. 2023

Ecology and Evolution

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“…The haplotype network is an analysis to comprehend the pattern of nucleotide mutations among combination alleles and visualize the relationships among the nucleotide mutations in a population (Yue et al 2018). The highest frequency haplotypes are the most ancient ones (Chen et al 2019). Moreover, the most common haplotypes and the most widely distributed haplotypes among the population are assumed to be ancestor haplotypes.…”

Section: Haplotype Diversity Analysismentioning

confidence: 99%

Coconut diversity based on chloroplast Single Nucleotide Amplified Polymorphism (SNAP) and Insertion-Deletion (InDel) markers

et al. 2022

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Abstract. Rahmawati A, Dinarti D, Maskromo I, Volkaert HA, Sudarsono. 2022. Coconut diversity based on chloroplast Single Nucleotide Amplified Polymorphism (SNAP) and Insertion-Deletion (InDel) markers. Biodiversitas 23: 4073-4081. Indonesia is known as a country rich in biodiversity, and a species with high diversity existing in Indonesia is coconut (Cocos nucifera L.). Although the high diversity of Indonesian coconut is recognized, information about its genetics is limited. The genetic relationship between Indonesian coconut and their maternal inheritance is important and has not been widely studied. This study aimed to analyze the genetic diversity of the Indonesian coconut using chloroplast SNAP and InDel markers, and evaluate their haplotype diversity. Sixty-four coconut accessions were evaluated using ten SNAP primers and five InDel primers based on cpDNA. All of the primers successfully amplified the cpDNA of most evaluated coconut accessions. Based on five InDel markers, six haplotypes were observed in Cocos nucifera. Phylogenetic analysis based on the combined SNAP and InDel markers divided the 64 coconut accessions into three clusters. The SNAP marker analysis results showed that they are less informative for evaluating coconut genetic diversity. On the other hand, the InDel markers are more informative and useful for coconut genetic diversity evaluation. Therefore, InDel markers based on chloroplast genomes has the potential for future coconut genetic variation analysis, evolutionary study, and DNA fingerprinting. The results should contribute to understanding the Indonesian coconut origins and evolution.

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New insights to protection and utilization of silver carp (Hypophthalmichthys molitrix) in Yangtze River based on microsatellite analysis

et al. 2021

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Monitoring the genetic effects of broodstock enhancement of silver carp (Hypophthalmichthys molitrix) in middle Yangtze River based oncytbgene and D-loop sequences

Abstract: 2019) Monitoring the genetic effects of broodstock enhancement of silver carp (Hypophthalmichthysmolitrix) in middle Yangtze River based on cytb gene and D-loop sequences,

Cited by 3 publications

References 28 publications

Multiple genetic lineages of anadromous migratory Mekong catfish Pangasius krempfi revealed by mtDNA control region and cytochrome b

Multiple genetic lineages of anadromous migratory Mekong catfish Pangasius krempfi revealed by mtDNA control region and cytochrome b

Coconut diversity based on chloroplast Single Nucleotide Amplified Polymorphism (SNAP) and Insertion-Deletion (InDel) markers

New insights to protection and utilization of silver carp (Hypophthalmichthys molitrix) in Yangtze River based on microsatellite analysis

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