Molecular study of globally threatened turtle species (families Trionychidae and Geoemydidae) of Uttarakhand and their relationship with other Indian populations: A wildlife forensic and conservation genetic approach

Rajpoot, Ankita; Bahuguna, Archana; Kumar, Ved Prakash

doi:10.1016/j.fsir.2019.100039

Cited by 2 publications

(2 citation statements)

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“…The members of the genus Biscogniauxia included in phylogenetic analyses were listed in Table 2. BioEdit 7.0.5.3 [20] was used for multiple sequence alignment, clipping and merging to concatenated ITS + ACT + TUB2 + RPB2 sequence dataset [21]. The concatenated dataset was analyzed in PhyloSuite v1.2.2 [22,23].…”

Section: Genomic Dna Extraction Pcr and Sequencingmentioning

confidence: 99%

A New Species of Biscogniauxia Associated with Pine Needle Blight on Pinus thunbergii in China

Qiao,

Zhao,

et al. 2024

Forests

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In June 2020, needle blight symptoms on Pinus thunbergii were discovered in Bazhong City, Sichuan Province, China. Fungal isolates were obtained from the pine needles of P. thunbergii. After examining morphological characteristics and conducting multi-locus (ITS, ACT, TUB2 and RPB2) phylogenetic analyses, the isolates SC1–SC5 were determined to be a new species, Biscogniauxia sinensis. Genealogical Concordance Phylogenetic Species Recognition with a pairwise homoplasy index test was used to further verify the results of the phylogenetic analyses. The morphology and phylogenetic relationships between this new species and other related Biscogniauxia species were discussed. To our knowledge, this is also the first report of Biscogniauxia sinensis associated with pine needle blight on P. thunbergii in China. The needle damage of P. thunbergii associated with Biscogniauxia sinensis will detrimentally affect the carbon absorption and photosynthetic efficiency of P. thunbergii, further reduce the absorption of nutrients by Japanese black pine and may lead to the imbalance of pine forest conditions, which will have a negative impact on the forest ecological system.

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Section: Genomic Dna Extraction Pcr and Sequencingmentioning

confidence: 99%

A New Species of Biscogniauxia Associated with Pine Needle Blight on Pinus thunbergii in China

Qiao,

Zhao,

et al. 2024

Forests

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“…The advancement of molecular tools is unfolding rapidly and has successfully resolved many questions on Geoemydidae turtle systematics ( Praschag, Hundsdörfer & Fritz, 2007 ). To date, PCR-based restriction fragment length polymorphism (RFLP) and partial nucleo-mitochondrial gene sequences have been generated for conservation genetics ( Kundu et al, 2018a ; Chang et al, 2018 ; Rajpoot, Bahuguna & Kumar, 2019 ; Yadav et al, 2021 ) and have clarified the phylogenetic position of this turtle group ( Spinks et al, 2004 ; Sasaki et al, 2006 ; Le, McCord & Iverson, 2007 ; Rohilla & Tiwari, 2008 ; Reid et al, 2011 ; Thomson, Spinks & Shaffer, 2021 ).…”

Section: Introductionmentioning

confidence: 99%

Matrilineal phylogeny and habitat suitability of the endangered spotted pond turtle (Geoclemys hamiltonii; Testudines: Geoemydidae): a two-dimensional approach to forecasting future conservation consequences

Kundu,

Mukherjee,

Kamalakannan

et al. 2023

PeerJ

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The spotted pond turtle (Geoclemys hamiltonii) is a threatened and less explored species endemic to Bangladesh, India, Nepal, and Pakistan. To infer structural variation and matrilineal phylogenetic interpretation, the present research decoded the mitogenome of G. hamiltonii (16,509 bp) using next-generation sequencing technology. The mitogenome comprises 13 protein-coding genes (PCGs), 22 transfer RNAs (tRNAs), two ribosomal RNAs (rRNAs), and one AT-rich control region (CR) with similar strand symmetry in vertebrates. The ATG was identified as a start codon in most of the PCGs except Cytochrome oxidase subunit 1 (cox1), which started with the GTG codon. The non-coding CR of G. hamiltonii was determined to have a unique structure and variation in different domains and stem-loop secondary structure as compared with other Batagurinae species. The PCGs-based Bayesian phylogeny inferred strong monophyletic support for all Batagurinae species and confirmed the sister relationship of G. hamiltonii with Pangshura and Batagur taxa. We recommend generating more mitogenomic data for other Batagurinae species to confirm their population structure and evolutionary relationships. In addition, the present study aims to infer the habitat suitability and habitat quality of G. hamiltonii in its global distribution, both in the present and future climatic scenarios. We identify that only 58,542 km2 (7.16%) of the total range extent (817,341 km2) is suitable for this species, along with the fragmented habitats in both the eastern and western ranges. Comparative habitat quality assessment suggests the level of patch shape in the western range is higher (71.3%) compared to the eastern range. Our results suggest a massive decline of approximately 65.73% to 70.31% and 70.53% to 75.30% under ssp245 and ssp585 future scenarios, respectively, for the years between 2021–2040 and 2061–2080 compared with the current distribution. The present study indicates that proper conservation management requires greater attention to the causes and solutions to the fragmented distribution and safeguarding of this endangered species in the Indus, Ganges, and Brahmaputra (IGB) river basins.

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Molecular study of globally threatened turtle species (families Trionychidae and Geoemydidae) of Uttarakhand and their relationship with other Indian populations: A wildlife forensic and conservation genetic approach

Cited by 2 publications

References 32 publications

A New Species of Biscogniauxia Associated with Pine Needle Blight on Pinus thunbergii in China

A New Species of Biscogniauxia Associated with Pine Needle Blight on Pinus thunbergii in China

Matrilineal phylogeny and habitat suitability of the endangered spotted pond turtle (Geoclemys hamiltonii; Testudines: Geoemydidae): a two-dimensional approach to forecasting future conservation consequences

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