Complete mitochondrial genomes of the critically endangered Ship sturgeon <i>Acipenser nudiventris</i> from two seas

Mugue, N. S.; Barmintseva, A. E.; Schepetov, Dimitry M.; Shalgimbayeva, Gulmira M.; Isbekov, Kuanysh Baibulatovich

doi:10.1080/23802359.2016.1144103

Cited by 11 publications

(11 citation statements)

References 16 publications

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“…Birstein and DeSalle, 1998;Zhang et al, 2013). Our results, based on both fragments (CYTB, COI), support close relationship between A. ruthenus and A. nudiventris, corresponding with findings of Ludwig et al (2001) or Mugue et al (2016). Both the mitochondrial fragments were highly reliable regarding species delimitation, and we can conclude that wild, broodstock and stocked fish are of the same origin, most likely from the Middle Danube.…”

Section: Microsatellitessupporting

confidence: 90%

“…This was likely caused by their very close relationships and low resolution of shorter fragments. Barcoding fragment (COI) revealed highly congruent results with an analysis of the whole mitogenome (Mugue et al, 2016). Both mitochondrial fragments were also important in estimating the genetic (nucleotide, haplotype) diversity within groups.…”

Section: Microsatellitesmentioning

confidence: 84%

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Current stocking program of the sterlet (Acipenser ruthenus, L.) can negatively shape its genetic variability in the Middle Danube

Pekárik

Čiamporová‐Zaťovičová²,

Arendt³

et al. 2019

Knowl. Manag. Aquat. Ecosyst.

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The Danube River was originally inhabited by six native sturgeon species, but currently, the sterlet (Acipenser ruthenus L.) is the only native sturgeon species still occupying the Slovak–Hungarian stretch of the Middle Danube. All sturgeon species are facing extinction, suffering from overfishing, water pollution, illegal fishing, poaching or other negative impacts. Urgent and proper actions are needed to prevent their extinction, and evaluating its genetic diversity is one of the essential tools of conservation programs. Since the management actions are primarily local in nature, we first focused on comparing and analysing local sources of fish for population recovery and natural (wild) population in the adjacent stretch of the Danube River. We used 2 fragments of mitochondrial DNA and 12 microsatellites to analyse the genotype of the three groups of sterlets, i.e. wild, broodstock and stocked individuals from Slovak part of the Danube. Mitochondrial markers of all groups were diversified similarly to populations from other parts of the Danube. This confirmed that broodstock and stocked fish belong to the original Danube population. Microsatellites revealed very similar patterns among groups compared, but we detected possible negative trends reflected in losing polymorphism in a few loci in broodstock and stocked individuals.

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Section: Microsatellitessupporting

confidence: 90%

Section: Microsatellitesmentioning

confidence: 84%

Current stocking program of the sterlet (Acipenser ruthenus, L.) can negatively shape its genetic variability in the Middle Danube

Pekárik

Čiamporová‐Zaťovičová²,

Arendt³

et al. 2019

Knowl. Manag. Aquat. Ecosyst.

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“…www.nature.com/scientificreports www.nature.com/scientificreports/ BigDye v3.0 chemistry from both directions by using the same primers. Primers and PCR conditions were published previously 11 . However, due to the highly degraded DNA quality of P. fedtschenkoi, PCR amplification of mtDNA with this set of primers mostly failed.…”

Section: Methodsmentioning

confidence: 99%

“…The Aral Sea basin in Central Asia (Kazakhstan, Tajikistan, Turkmenistan and Uzbekistan) has historically had an extraordinary endemic fauna, including four acipenserid species: the Amu Darya shovelnose sturgeon (Pseudoscaphirhynchus kaufmanni Bogdanov, 1874), dwarf Amu Darya shovelnose sturgeon (P. hermanni Kessler, 1877), Syr Darya shovelnose sturgeon (P. fedtschenkoi Kessler, 1872), and Aral ship sturgeon (Acipenser nudiventris Lovetsky, 1828), with the two latter species possibly extinct in their native habitat, and, unlike A. nudiventris, P. fedtschenkoi also does not exist anywhere in aquaculture [10][11][12] . The species' extinction in this region over the recent decades is mostly associated with the Aral Sea ecological disaster that was initially caused by anthropogenic activity through intensive water use from the Amu Darya and the Syr Darya rivers for irrigation and cotton agriculture development as well as wide application of pesticides and mineral fertilizers 13 .…”

mentioning

confidence: 99%

Molecular phylogeny of one extinct and two critically endangered Central Asian sturgeon species (genus Pseudoscaphirhynchus) based on their mitochondrial genomes

Nedoluzhko

Sharko

Tsygankova

et al. 2020

Sci Rep

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the enigmatic and poorly studied sturgeon genus Pseudoscaphirhynchus (Scaphirhynchinae: Acipenseridae) comprises three species: the Amu Darya shovelnose sturgeon (Pseudoscaphirhynchus kaufmanni (Bogdanow)), dwarf Amu Darya shovelnose sturgeon P. hermanni (Kessler), and Syr Darya shovelnose sturgeon (P. fedtschenkoi (Bogdanow). two species-P. hermanni and P. kaufmanni-are critically endangered due to the Aral Sea area ecological disaster, caused by massive water use for irrigation to support cotton agriculture, subsequent pesticide pollution and habitat degradation. for another species-P. fedtschenkoi-no sightings have been reported since 1960-s and it is believed to be extinct, both in nature and in captivity. in this study, complete mitochondrial (mt) genomes of these three species of Pseudoscaphirhynchus were characterized using illumina and Sanger sequencing platforms. Phylogenetic analyses showed the significant divergence between Amu Darya and Syr Darya freshwater sturgeons and supported the monophyletic origin of the Pseudoscaphirhynchus species. We confirmed that two sympatric Amu Darya species P. kaufmanni and P. hermanni form a single genetic cluster, which may require further morphological and genetic study to assess possible hybridization, intraspecific variation and taxonomic status and to develop conservation measures to protect these unique fishes. The animal diversity and classification remain complex with new species being continuously discovered and described. Meanwhile, an increase in human activity has led to the degradation of ecosystems, the destruction of native habitats and the direct extinction of many animal species 1. Museum specimens have become increasingly more valuable in evolutionary and conservation biology studies solving fundamental and applied problems using a novel arsenal of molecular genetic techniques. DNA isolation from historical samples and high-capacity DNA sequencing open up new opportunities associated with the investigation of evolution and phylogeny of extinct or endangered species 2-6. The order Acipenseriformes is an ancient fish group which is represented by two families: Polyodontidae and Acipenseridae 7. All of the extant species from the Acipenseridae family that inhabit North America and Eurasia are endangered and listed in CITES appendices 8,9 .

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“…5 immediately after proline tRNA, which was 3 replicates with the size of 82 bp 29 . Mugue et al 2016 also reported a repetitive sequence of 82 pairs of bases in the ship specie 37 . Researchers with investigating the control region, related the formation of duplicate blocks with the genes close to CR (12 SrRNA and tRNA) 42 .…”

Section: Introductionmentioning

confidence: 98%

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

Dadkhah

Mianji

Barzegar

et al. 2021

Preprint

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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.

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Complete mitochondrial genomes of the critically endangered Ship sturgeon Acipenser nudiventris from two seas

Cited by 11 publications

References 16 publications

Current stocking program of the sterlet (Acipenser ruthenus, L.) can negatively shape its genetic variability in the Middle Danube

Current stocking program of the sterlet (Acipenser ruthenus, L.) can negatively shape its genetic variability in the Middle Danube

Molecular phylogeny of one extinct and two critically endangered Central Asian sturgeon species (genus Pseudoscaphirhynchus) based on their mitochondrial genomes

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

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