Transcriptomes of Saussurea (Asteraceae) Provide Insights into High-Altitude Adaptation DOI Creative Commons
Xu Zhang,

Yanxia Sun,

Jacob B. Landis

et al.

Plants, Journal Year: 2021, Volume and Issue: 10(8), P. 1715 - 1715

Published: Aug. 20, 2021

Understanding how species adapt to extreme environments is an extension of the main goals evolutionary biology. While alpine plants are ideal system for investigating genetic basis high-altitude adaptation, genomic resources in these still limited. In present study, we generated reference-level transcriptomic data five Saussurea through high-throughput sequencing and de novo assembly. Three them located highland Qinghai-Tibet Plateau (QTP), other two close relatives distributed lowland. A series comparative genomics analyses were conducted explore signatures adaptive evolution environments. Estimation divergence time using single-copy orthologs revealed that diversified during Miocene, a period with extensive tectonic movement climatic fluctuation on QTP. We characterized gene families specific species, including genes involved oxidoreductase activity, pectin catabolic process, lipid transport, polysaccharide metabolic which may play important roles defense hypoxia freezing temperatures Furthermore, phylogenetic context branch model, identified hundreds positive selection. These DNA repair, membrane response UV-B hypoxia, reproductive processes, as well some processes associated nutrient intake, potentially responsible adaptation harsh high altitude. Overall, our study provides valuable gained helpful insights into adapting

Language: Английский

The global significance of biodiversity science in China: an overview DOI
Xiangcheng Mi, Gang Feng, Yibo Hu

et al.

National Science Review, Journal Year: 2021, Volume and Issue: unknown

Published: Feb. 19, 2021

Biodiversity science in China has seen rapid growth over recent decades, ranging from baseline biodiversity studies to understanding the processes behind evolution across dynamic regions such as Qinghai-Tibetan Plateau. We review research, including species catalogues; monitoring; origins, distributions, maintenance and threats biodiversity; biodiversity-related ecosystem function services; ecosystems' responses global change. Next, we identify priority topics offer suggestions priorities for future research China. These include (i) ecology biogeography of Plateau surrounding mountains, that subtropical tropical forests China; (ii) marine inland aquatic (iii) effective conservation management maintain synergies between socio-economic development fulfil China's vision becoming an ecological civilization. In addition, propose three strategies: translate advanced into practice conservation; strengthen capacity building application technologies, high-throughput sequencing, genomics remote sensing; expand international collaborations. Based on progress is well positioned become a leader near future.

Language: Английский

Citations

159
Molecular mechanisms of adaptive evolution in wild animals and plants DOI Open Access
Yibo Hu, Xiaoping Wang, Yong‐Chao Xu

et al.

Science China Life Sciences, Journal Year: 2023, Volume and Issue: 66(3), P. 453 - 495

Published: Jan. 13, 2023

Language: Английский

Citations

54
Renal and extrarenal regulation of body fluid composition DOI

David L. Goldstein

Elsevier eBooks, Journal Year: 2021, Volume and Issue: unknown, P. 411 - 443

Published: Nov. 12, 2021

Language: Английский

Citations

99
Evolutionary origin of species diversity on the Qinghai–Tibet Plateau DOI Open Access
Kangshan Mao, Yi Wang, Jianquan Liu

et al.

Journal of Systematics and Evolution, Journal Year: 2021, Volume and Issue: 59(6), P. 1142 - 1158

Published: Aug. 25, 2021

Abstract The Qinghai–Tibet Plateau (QTP) sensu lato ( sl ) houses an exceptional species diversity in Asia. To develop a comprehensive understanding of this fascinating region, we reviewed recent progress from biogeographic, paleogeographic, paleontological and genomic research both plants animals the QTP . Numerous studies have been conducted to examine whether uplift triggered production rich there, Quaternary “unified ice sheet” eliminated on central plateau how high‐altitude developed extreme environment adaptations. Major disputes arose about first issue, mainly different circumscriptions related uplift, inaccurate dating molecular phylogenetic trees, non‐causal correlations between diversification. is spatially temporally heterogeneous, abundant fossils reported recently similarly support such asynchronous upheaval model across entire region. Available phylogeographic alpine suggested their glacial refugia , rejecting unified sheet during Last Glacial Maximum. Genomic evidence limited number has identified numerous candidate genes for adaptation. In future, more should be focused speciation adaptation mechanisms based cutting‐edge methods.

Language: Английский

Citations

94
Tissue-specific and cis-regulatory changes underlie parallel, adaptive gene expression evolution in house mice DOI Creative Commons
Sylvia M. Durkin, Mallory A. Ballinger, Michael W. Nachman

et al.

PLoS Genetics, Journal Year: 2024, Volume and Issue: 20(2), P. e1010892 - e1010892

Published: Feb. 2, 2024

Changes in gene regulation have long been appreciated as a driving force of adaptive evolution, however the relative contributions cis- and trans- acting changes to over short evolutionary timescales remain unclear. Instances recent, parallel phenotypic evolution provide an opportunity assess whether patterns are seen at level expression, contribution cis - trans early stages divergence. Here, we studied expression liver brown adipose tissue two wild-derived strains house mice that independently adapted cold, northern environments, compared them strain from warm, tropical environment. To investigate regulatory parents allele-specific F1 hybrids crosses between warm-adapted cold-adapted strains. First, found different showed both unique shared but proportion (i.e. parallelism) was greater than expected by chance. Second, discovered occurred largely tissue-specific -regulated genes, these genes were over-represented cases evolution. Finally, integrated data with scans for selection natural populations substantial parallelism under selection. Furthermore, outliers associated more chance; influenced phenotypes such body size, immune functioning, activity level. These results demonstrate cold environments driven -regulatory changes, providing insight into mechanisms earliest

Language: Английский

Citations

7
Transcriptional atlas analysis from multiple tissues reveals the expression specificity patterns in beef cattle DOI Creative Commons
Tianliu Zhang, Tianzhen Wang, Qunhao Niu

et al.

BMC Biology, Journal Year: 2022, Volume and Issue: 20(1)

Published: March 29, 2022

Abstract Background A comprehensive analysis of gene expression profiling across tissues can provide necessary information for an in-depth understanding their biological functions. We performed a large-scale and generated high-resolution atlas the transcriptome in beef cattle. Results Our was from 135 bovine adult cattle, covering 51 tissue types major organ systems (e.g., muscular system, digestive immune reproductive system). Approximately 94.76% sequencing reads were successfully mapped to reference genome assembly ARS-UCD1.2. detected total 60,488 transcripts, 32% them not reported before. identified 2654 housekeeping genes (HKGs) 477 tissue-specific (TSGs) tissues. Using weighted co-expression network analysis, we obtained 24 modules with 237 hub (HUBGs). Functional enrichment showed that HKGs mainly maintain basic activities cells, while TSGs involved differentiation specific physiological processes. more conserved terms pattern as compared HUBGs among multiple species. Finally, subset differentially expressed (DEGs) between dairy cattle several functional pathways, which may be production health traits. Conclusions providing valuable enhancing annotation. HKGs, TSGs, further contribute better biology evolution DEGs also fill knowledge gaps about differential regulation underlying economically important

Language: Английский

Citations

27
Integrated Metabolomic and Transcriptomic Analysis of the Flavonoid Accumulation in the Leaves of Cyclocarya paliurus at Different Altitudes DOI Creative Commons
Zhaokui Du, Weida Lin, Binbin Yu

et al.

Frontiers in Plant Science, Journal Year: 2022, Volume and Issue: 12

Published: Feb. 8, 2022

Cyclocarya paliurus is a medicinal plant containing flavonoids, triterpenoids, polyphenolics, polysaccharides, and other compounds with diverse biological functions. C. distributed across altitudes ranging from 400 to 1,000 m. However, little known about the effect of altitude on metabolite accumulation in paliurus. Also, biosynthetic pathway involved flavonoid has not been fully elucidated. In this study, mature leaves growing at low (280 m) high (920 were sampled subjected metabolomic transcriptomic analyses. The content composition higher collected than those altitude. Most differentially accumulated metabolites (DAMs) enriched "flavone flavonol biosynthesis." significant expressed genes (DEGs) between mainly "biological process." most heavily KEGG was related subcategory "Oxidative phosphorylation," indicating that complicated processes are response harsh environmental factors. High UV-light might be main influencing factor among factors found altitudes. Integrated analysis data showed 31 flavonoids significantly correlated 227 DEGs, resulting 412 pairs (283 positive 129 negative) DEGs flavonoids. possible mechanisms underlying different due variations transport relocation leaves, but biosynthesis pathways. up-regulation energy protein synthesis contribute This study broadens our understanding

Language: Английский

Citations

24
The evolution of ancestral and species-specific adaptations in snowfinches at the Qinghai–Tibet Plateau DOI Creative Commons
Yanhua Qu, Chunhai Chen, Xiumin Chen

et al.

Proceedings of the National Academy of Sciences, Journal Year: 2021, Volume and Issue: 118(13)

Published: March 22, 2021

Significance Harsh conditions in high elevations present strong stresses for organisms. Previous studies targeting phylogenetically distinct species revealed cases of diversified adaptations, but it remains largely unknown how common ancestry contributes to evolution similar adaptations. Our study based on a complex (snowfinches) living Qinghai–Tibet Plateau shows that ancestral snowfinches had phenotypically evolved larger body size and genetically an accelerated selection genes related development signaling. From this state adaptation three descendants have undergone independent adaptive processes response the differences selective pressures acting them. A striking example is DNA repair gene, DTL , which nonsynonymous substitutions evolving ancestor led different damage kinetics.

Language: Английский

Citations

32
Joint effects of environmental filtering and dispersal limitation on the species assemblage of the Tibetan Plateau DOI
Jiekun He, Haoxian Lin, Runxi Wang

et al.

Journal of Biogeography, Journal Year: 2022, Volume and Issue: 49(4), P. 640 - 653

Published: Feb. 24, 2022

Abstract Aim Mountains harbour a rich and non‐random cluster of species, yet knowledge the species' biological attributes that support their coexistence in montane community is limited. Here, we investigated association species occurrence on Tibetan Plateau with morphological, ecological or evolutionary constraints. Location (TP). Taxon Mammals birds. Methods We tested whether TP correlates constraints using spatial distribution, phylogeny, dispersal ability thermal niche property data for 1353 terrestrial vertebrates (383 mammals 970 birds). used standard (non‐phylogenetic) phylogenetic logistic regressions to elucidate relative contributions these explaining TP. assessed geographical patterns structures fitted linear mixed models explore underlying eco‐evolutionary forces. Results The exhibited higher cold tolerance, wider breadth rate evolution than non‐TP species. supported assumption were not random subset from pool, but structured jointly by environmental filtering limitation. While processes assemblages varied spatially among taxa, found stressful environments limited filtering, whereas limitation was more pronounced under favourable climatic conditions. Main conclusions Our study finds shape assemblage These findings provide significant insights into assembly other ecosystems Earth, especially those are sensitive global warming.

Language: Английский

Citations

22
Comparative Transcriptome Analyses of Gayal (Bos frontalis), Yak (Bos grunniens), and Cattle (Bos taurus) Reveal the High-Altitude Adaptation DOI Creative Commons
Jun Ma, Tianliu Zhang, Wenxiang Wang

et al.

Frontiers in Genetics, Journal Year: 2022, Volume and Issue: 12

Published: Jan. 11, 2022

Gayal and yak are well adapted to their local high-altitude environments, yet the transcriptional regulation difference of plateau environment among them remains obscure. Herein, cross-tissue cross-species comparative transcriptome analyses were performed for six hypoxia-sensitive tissues from gayal, yak, cattle. Gene expression profiles all single-copy orthologous genes showed tissue-specific patterns. By differential analysis, we identified 3,020 1,995 differentially expressed (DEGs) in at least one tissue gayal vs. cattle cattle, respectively. Notably, found that adaptability alpine canyon is highly similar living Qinghai-Tibet Plateau, such as promoting red blood cell development, angiogenesis, reducing coagulation, immune system activation, energy metabolism shifts fatty acid β-oxidation glycolysis. further analyzing common unique DEGs tissues, also numerous regulatory related these functions which may play important roles adapting corresponding environment. Combined with WGCNA UQCRC1 COX5A shared hub supply myocardial contraction heart-related modules CAPS a gene lung-related module, pulmonary artery smooth muscle contraction. Additionally, EDN3 tracheal epithelium vasoconstriction lung gayal. CHRM2 was heart has an role autonomous heart. These results provide basis understanding complex pattern mechanism domestication yak.

Language: Английский

Citations

19