scholarly journals Faecal DNA to the rescue: Shotgun sequencing of non-invasive samples reveals two subspecies of Southeast Asian primates to be Critically Endangered species

2020 ◽  
Vol 10 (1) ◽  
Author(s):  
Andie Ang ◽  
Dewi Imelda Roesma ◽  
Vincent Nijman ◽  
Rudolf Meier ◽  
Amrita Srivathsan ◽  
...  
Keyword(s):  
Endangered Species ◽  
Southeast Asian ◽  
Shotgun Sequencing ◽  
Critically Endangered ◽  
Faecal Dna ◽  
Critically Endangered Species ◽  
Non Invasive

scholarly journals Faecal DNA to the rescue: Shotgun sequencing of non-invasive samples reveals two subspecies of Southeast Asian primates to be Critically Endangered species

2019 ◽  
Author(s):  
Andie Ang ◽  
Dewi Imelda Roesma ◽  
Vincent Nijman ◽  
Rudolf Meier ◽  
Amrita Srivathsan ◽  
...  
Keyword(s):  
Conservation Status ◽  
Molecular Data ◽  
Southeast Asian ◽  
Small Population ◽  
Shotgun Sequencing ◽  
Critically Endangered ◽  
Species Boundaries ◽  
Faecal Dna ◽  
Mammal Species ◽  
Critically Endangered Species

AbstractA significant number of Southeast Asian mammal species described in the 19th and 20th century were subsequently synonymized and are now considered subspecies. Many are affected by rapid habitat loss and there is thus an urgent need to re-assess the conservation status based on species boundaries established with molecular data. However, such data are lacking for many populations and subspecies. We document via a literature survey and empirical study how shotgun sequencing of faecal DNA is a still underutilized but powerful tool for accelerating such evaluations. We obtain 11 mitochondrial genomes for three subspecies in the langur genus Presbytis through shotgun sequencing of faecal DNA (P. femoralis femoralis, P. f. percura, P. siamensis cf. cana). The genomes support the resurrection of all three subspecies to species based on multiple species delimitation algorithms (PTP, ABGD, Objective Clustering) applied to a dataset covering 40 species and 43 subspecies of Asian colobines. For two of the newly recognized species (P. femoralis, P. percura), the results lead to an immediate change in the IUCN status to Critically Endangered due to small population estimates and fragmented habitat. We conclude that faecal DNA should be more widely used for clarifying species boundaries in endangered mammals.

Where have all the sawfishes gone? Perspectives on declines of these Critically Endangered species in Sri Lanka

2021 ◽  
Author(s):  
Akshay Tanna ◽  
Daniel Fernando ◽  
Ramajeyam Gobiraj ◽  
Buddhi M. Pathirana ◽  
Sahan Thilakaratna ◽  
...  
Keyword(s):  
Sri Lanka ◽  
Endangered Species ◽  
Critically Endangered ◽  
Critically Endangered Species

scholarly journals The Oral Bacterial Community in Melanophryniscus admirabilis (Admirable Red-Belly Toads): Implications for Conservation

2021 ◽  
Vol 9 (2) ◽  
pp. 220
Author(s):  
Michele Bertoni Mann ◽  
Janira Prichula ◽  
Ícaro Maia Santos de Castro ◽  
Juliana Mello Severo ◽  
Michelle Abadie ◽  
...  
Keyword(s):  
Endangered Species ◽  
Bacterial Community ◽  
High Throughput Sequencing ◽  
Dietary Diversity ◽  
Natural Habitat ◽  
Critically Endangered ◽  
Personal Genome ◽  
Oral Microbiota ◽  
Critically Endangered Species ◽  
Anthropogenic Environment

Melanophryniscus admirabilis (admirable red-belly toad) is a microendemic and critically endangered species found exclusively along 700 m of the Forqueta River, in a fragment of the Atlantic Forest of southern Brazil. One of the greatest concerns regarding the conservation of this species is the extensive use of pesticides in areas surrounding their natural habitat. In recent years, the adaptation and persistence of animal species in human-impacted environments have been associated with microbiota. Therefore, the present study aimed to characterize the oral bacterial community of wild M. admirabilis and to address the question of how this community might contribute to this toad’s adaptation in the anthropogenic environment as well as its general metabolic capabilities. A total of 11 oral samples collected from wild M. admirabilis were characterized and analyzed via high-throughput sequencing. Fragments of the 16S rRNA variable region 4 (V4) were amplified, and sequencing was conducted using an Ion Personal Genome Machine (PGM) System with 316 chips. A total of 181,350 sequences were obtained, resulting in 16 phyla, 34 classes, 39 orders, and 77 families. Proteobacteria dominated (53%) the oral microbiota of toads, followed by Firmicutes (18%), Bacteroidetes (17%), and Actinobacteria (5%). No significant differences in microbial community profile from among the samples were reported, which suggests that the low dietary diversity observed in this population may directly influence the bacterial composition. Inferences of microbiome function were performed using PICRUSt2 software. Important pathways (e.g., xenobiotic degradation pathways for pesticides and aromatic phenolic compounds) were detected, which suggests that the bacterial communities may serve important roles in M. admirabilis health and survival in the anthropogenic environment. Overall, our results have important implications for the conservation and management of this microendemic and critically endangered species.

scholarly journals High survival rate of a critically endangered species, the Azores Bullfinch Pyrrhula murina, as a contribution to population recovery

2010 ◽  
Vol 151 (3) ◽  
pp. 627-636 ◽  
Author(s):  
David Monticelli ◽  
Ricardo Ceia ◽  
Ruben Heleno ◽  
Hugo Laborda ◽  
Sergio Timóteo ◽  
...  
Keyword(s):  
Survival Rate ◽  
Endangered Species ◽  
Critically Endangered ◽  
High Survival ◽  
Population Recovery ◽  
High Survival Rate ◽  
Critically Endangered Species

scholarly journals Effects of Lead on Ultrastructure of Isoetes sinensis Palmer (Isoetaceae), a Critically Endangered Species in China

PLoS ONE ◽  
2015 ◽  
Vol 10 (9) ◽  
pp. e0139231 ◽  
Author(s):  
Guohua Ding ◽  
Chunye Li ◽  
Xu Han ◽  
Chunyu Chi ◽  
Dawei Zhang ◽  
...  
Keyword(s):  
Endangered Species ◽  
Critically Endangered ◽  
Critically Endangered Species

Genomic characteristics of critically endangered Chimonobambusa hirtinoda C.S. Chao & K.M. Lan

2021 ◽  
Vol 50 (1) ◽  
pp. 69-77
Author(s):  
Tengfei Shen ◽  
Youmiao Zheng ◽  
Zimou Sun ◽  
Meng Xu
Keyword(s):  
Endangered Species ◽  
Frequency Analysis ◽  
Natural Habitat ◽  
Gc Content ◽  
Critically Endangered ◽  
Critically Endangered Species ◽  
Phylogenetic Studies ◽  
Ssr Loci ◽  
Ecological Conservation ◽  
Repeat Rate

With its unique square-shaped culm, Chimonobambusa hirtinoda C.S. Chao & K.M. Lan is a critically endangered species, and its natural habitat is solely restricted to Doupeng Mountain in Guizhou, China. Two small-insert libraries from C. hirtinoda were constructed and sequenced. Approximately 127.83 Gb of highquality reads were generated and assembled into 9,320,997 contigs with a N50 length of 213bp, thereby producing 8,867,344 scaffolds with total length of 2.01 Gb. An estimated genome size of C. hirtinode was 2.86 Gb on the basis of k-mer frequency analysis, with the GC content of 45.40%. The repeat rate and heterozygous ratio were 74.11 and 1.48% in C. hirtinoda genome, respectively. Finally, 65,398 SSR loci were identified in the assembled contigs, including 58.66% tri-nucleotide, 27.42% di-nucleotide, 7.94% tetranucleotide, 3.67% penta-nucleotide, and 2.31% hexa-nucleotide. Results of this study are useful not only for ecological conservation of C. hirtinoda, but also for phylogenetic studies.

Lymania involucrata (Bromeliaceae: Bromelioideae), a new ornamental species from Bahia, Brazil

Phytotaxa ◽  
2021 ◽  
Vol 489 (2) ◽  
pp. 209-215
Author(s):  
EVERTON HILO DE SOUZA ◽  
LIDYANNE Y. S. AONA ◽  
FERNANDA V. D. SOUZA ◽  
ELTON M. C. LEME
Keyword(s):  
New Species ◽  
Endangered Species ◽  
Atlantic Forest ◽  
Critically Endangered ◽  
Critically Endangered Species ◽  
Ornamental Species ◽  
Shape And Size

The authors describe, discuss, and illustrate Lymania involucrata, a new ornamental species from the Atlantic Forest in the municipality of Igrapiúna, Bahia, Brazil, here considered a critically endangered species. The new species is morphologically related to L. brachycaulis but clearly diffe According to Sousa rs from it by the well-developed, involucral primary bracts and the distinct shape and size of inflorescence, primary branches, and flowers. A map of the distribution of the species and taxonomic comments are presented.

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