61 Works

Data from: Extant primitively segmented spiders have recently diversified from an ancient lineage

Xin Xu, Fengxiang Liu, Ren-Chung Cheng, Jian Chen, Xiang Xu, Zhisheng Zhang, Hirotsugu Ono, Dinh Sac Pham, Y. Norma-Rashid, Miquel A. Arnedo, Matjaž Kuntner, Daiqin Li & R.-C. Cheng
Living fossils are lineages that have retained plesiomorphic traits through long time periods. It is expected that such lineages have both originated and diversified long ago. Such expectations have recently been challenged in some textbook examples of living fossils, notably in extant cycads and coelacanths. Using a phylogenetic approach, we tested the patterns of the origin and diversification of liphistiid spiders, a clade of spiders considered to be living fossils due to their retention of...

Data from: Molecular phylogeny of Terniopsis (Podostemaceae) and contrasting molecular and morphological variations in two species

Satoshi Koi, Hyosig Won, Hùng Trần, La-Aw Ampornpan & Masahiro Kato
Podostemaceae show different patterns of morphological variation relative to molecular ones between genera and between species, but additional material was necessary to make the patterns clearer. Using new material collected from Cambodia, we compared the variations of Terniopsis chanthaburiensis and T. heterostaminata in Cambodia, Laos and Thailand, and conducted matK phylogenetic analysis with many samples and most species of the genus. In contrast to the narrow molecular variation, the morphological variation (e.g., in the length...

Data from: Dinoflagellates with relic endosymbiont nuclei as models for elucidating organellogenesis

Yuji Inagaki, Chihiro Sarai, Goro Tanifuji, Takuro Nakayama, Ryoma Kamikawa, Tazuya Takahashi, Hideaki Miyashita, Ken-Ichiro Ishida, Mitsunori Iwataki, Euki Yazaki & Eriko Matsuo
Nucleomorphs are relic endosymbiont nuclei so far found only in two algal groups, cryptophytes and chlorarachniophytes, which have been studied to model the evolutionary process of integrating an endosymbiont alga into a host-governed plastid (organellogenesis). However, past studies suggested that DNA transfer from the endosymbiont to host nuclei had already ceased in both cryptophytes and chlorarachniophytes, implying that the organellogenesis at the genetic level has been completed in the two systems. Moreover, we have yet...

Data from: An update and reassessment of fern and lycophyte diversity data in the Japanese Archipelago

Atsushi Ebihara & Joel H. Nitta
The fern and lycophyte flora of Japan comprising 721 native taxa (including subspecies and varieties) plus 371 interspecific hybrids was reassessed using a nearly comprehensively sampled distribution map at 10 km resolution vouchered by 216,687 specimens, up-to-date cytotaxonomic information covering 74% of the taxa, and an rbcL sequence dataset covering 97.9% of the taxa. Spatial distribution of species richness and phylogenetic diversity was visualized. Apomixis was observed in 11.0% of the native taxa whose reproductive...

Caregiving in U.S. Gulf States During Natural Disasters and COVID-19

Nathan A. Boucher, Kevin McKenna, Carrie B. Dombeck, Amy G. Clark, Ke Wang, Jennifer M. Olsen & Megan Shepherd-Banigan
Objectives:To ascertain common experiences and needs of a diverse group of caregivers challenged by hurricanes/floods and COVID-19.Methods:In-depth interviews with unpaid caregivers in U.S. Southeast/Gulf Coast states who had experienced caregiving during a natural disaster and during COVID-19.Results:Caregivers report challenges including daily living disruption, altered social supports, complicated health management, additional disaster planning, and emotional/financial impacts. Caregivers suggested helpful resources, policy options, and preparatory tools at individual, local, and health system levels to mediate discontinuity.Conclusions:Our data...

Supplementary document for Label-Free Measurement of Wall Shear Stress in Brain Venule and Arteriole Using Dual-Wavelength Third-Harmonic-Generation Line-Scanning Imaging - 6087953.pdf

Hui Cheng, Xinlin Chen, Zhong jincheng, Jia Li, Ping Qiu & Ke Wang
Supplemental methods

Additional file 1 of RBM10 regulates alternative splicing of lncRNA Neat1 to inhibit the invasion and metastasis of NSCLC

Shan Cong, Xin Di, Ranwei Li, Yingshu Cao, Xin Jin, Chang Tian, Min Zhao & Ke Wang
Additional file 1: Figure S1. The flow chart of Clip-Seq.

RBM10 regulates alternative splicing of lncRNA Neat1 to inhibit the invasion and metastasis of NSCLC

Shan Cong, Xin Di, Ranwei Li, Yingshu Cao, Xin Jin, Chang Tian, Min Zhao & Ke Wang
Abstract Background Non-small cell lung cancer (NSCLC) accounts for more than 85% of the total cases with lung cancer. NSCLC is characterized by easy metastasis, which often spreads to bones, brains and livers. RNA-binding motif protein 10 (RBM10) is an alternative splicing (AS) regulator frequently mutated in NSCLC. We found that there were multiple peak binding sites between RBM10 and long non-coding RNA nuclear enriched abundant transcript 1 (LncRNA Neat1) by crosslinking-immunprecipitation and high-throughput sequencing...

Additional file 2 of Gene loss, pseudogenization, and independent genome reduction in non-photosynthetic species of Cryptomonas (Cryptophyceae) revealed by comparative nucleomorph genomics

Jong Im Kim, Goro Tanifuji, Minseok Jeong, Woongghi Shin & John M. Archibald
Additional file 2: Table S1. Gene content of eight cryptophyte nucleomorph genomes. Table S2. Sequence similarities of hypothetical ORFs across eight cryptophyte nucleomorph genomes. Table S3. Conserved hypothetical ORFs (nORFs) in eight cryptophyte nucleomorph genomes.

Label-Free Measurement of Wall Shear Stress in Brain Venule and Arteriole Using Dual-Wavelength Third-Harmonic-Generation Line-Scanning Imaging

Hui Cheng, Xinlin Chen, Zhong jincheng, Jia Li, Ping Qiu & Ke Wang
Wall shear stress (WSS) is of fundamental physiological and pathological significance. Current measurement technologies suffer from poor spatial resolution, or cannot measure instantaneous values in a label-free manner. Here we demonstrate dual-wavelength third-harmonic-generation (THG) line-scanning imaging, for instantaneous wall shear rate and WSS measurement in vivo. We used soliton self-frequency shift to generate dual-wavelength femtosecond pulses. Simultaneous acquisition of dual-wavelength THG line-scanning signals extract blood flow velocities at adjacent radial positions for instantaneous wall shear...

Data from: Identification of the notothenioid sister lineage illuminates the biogeographic history of an Antarctic adaptive radiation

Thomas J. Near, Alex Dornburg, Richard C. Harrington, Claudio Oliveira, Theodore W. Pietsch, Christine E. Thacker, Takashi P. Satoh, Eri Katayama, Peter C. Wainwright, Joseph T. Eastman & Jeremy M. Beaulieu
Background: Antarctic notothenioids are an impressive adaptive radiation. While they share recent common ancestry with several species-depauperate lineages that exhibit a relictual distribution in areas peripheral to the Southern Ocean, an understanding of their evolutionary origins and biogeographic history is limited as the sister lineage of notothenioids remains unidentified. The phylogenetic placement of notothenioids among major lineages of perciform fishes, which include sculpins, rockfishes, sticklebacks, eelpouts, scorpionfishes, perches, groupers and soapfishes, remains unresolved. We investigate...

Data from: Oligocene–Neogene fossil history of Asian endemic conifer genera in Japan and Korea

Atsushi Yabe, Eunkyoung Jeong, Kyungsik Kim & Kazuhiko Uemura
Temporal and spatial changes of ten conifer genera that are endemic to East Asia were analyzed based on fossil data from humid temperate forests in the Japanese Islands and Korean Peninsula to elucidate the phytogeographic history, and to understand differences between those genera eliminated from the Japanese Islands and those remained extant. All these genera, except for Thujopsis, have existed in the area since the Paleogene and remained in the Japanese islands after initial separation...

Data from: Mapping molar shapes on signaling pathways

Wataru Morita, Naoki Morimoto & Jukka Jernvall
A major challenge in evolutionary developmental biology is to understand how genetic mutations underlie phenotypic changes. In principle, selective pressures on the phenotype screen the gene pool of the population. Teeth are an excellent model for understanding evolutionary changes in the genotype-phenotype relationship since they exist throughout vertebrates. Genetically modified mice (mutants) with abnormalities in teeth have been used to explore tooth development. The relationship between signaling pathways and molar shape, however, remains elusive due...

sj-docx-1-ggm-10.1177_23337214221133719 – Supplemental material for Caregiving in U.S. Gulf States During Natural Disasters and COVID-19

Nathan A. Boucher, Kevin McKenna, Carrie B. Dombeck, Amy G. Clark, Ke Wang, Jennifer M. Olsen & Megan Shepherd-Banigan
Supplemental material, sj-docx-1-ggm-10.1177_23337214221133719 for Caregiving in U.S. Gulf States During Natural Disasters and COVID-19 by Nathan A. Boucher, Kevin McKenna, Carrie B. Dombeck, Amy G. Clark, Ke Wang, Jennifer M. Olsen and Megan Shepherd-Banigan in Gerontology and Geriatric Medicine

sj-docx-1-ggm-10.1177_23337214221133719 – Supplemental material for Caregiving in U.S. Gulf States During Natural Disasters and COVID-19

Nathan A. Boucher, Kevin McKenna, Carrie B. Dombeck, Amy G. Clark, Ke Wang, Jennifer M. Olsen & Megan Shepherd-Banigan
Supplemental material, sj-docx-1-ggm-10.1177_23337214221133719 for Caregiving in U.S. Gulf States During Natural Disasters and COVID-19 by Nathan A. Boucher, Kevin McKenna, Carrie B. Dombeck, Amy G. Clark, Ke Wang, Jennifer M. Olsen and Megan Shepherd-Banigan in Gerontology and Geriatric Medicine

sj-docx-2-ggm-10.1177_23337214221133719 – Supplemental material for Caregiving in U.S. Gulf States During Natural Disasters and COVID-19

Nathan A. Boucher, Kevin McKenna, Carrie B. Dombeck, Amy G. Clark, Ke Wang, Jennifer M. Olsen & Megan Shepherd-Banigan
sj-docx-2-ggm-10.1177_23337214221133719 for Caregiving in U.S. Gulf States During Natural Disasters and COVID-19 by Nathan A. Boucher, Kevin McKenna, Carrie B. Dombeck, Amy G. Clark, Ke Wang, Jennifer M. Olsen and Megan Shepherd-Banigan in Gerontology and Geriatric Medicine

Plastome phylogenomic analysis reveals evolutionary divergences of Polypodiales suborder Dennstaedtiineae

Jin-Mei Lu, Xin-Yu Du, Li-Yaung Kuo, Atsushi Ebihara, Leon R. Perrie, Zheng-Yu Zuo, Hui Shang, Yi-Han Chang & De-Zhu Li
Abstract Background Polypodiales suborder Dennstaedtiineae contain a single family Dennstaedtiaceae, eleven genera, and about 270 species, and include some groups that were previously placed in Dennstaedtiaceae, Hypolepidaceae, Monachosoraceae, and Pteridaceae. The classification and phylogenetic relationships among these eleven genera have been poorly understood. To explore the deep relationships within suborder Dennstaedtiineae and estimate the early diversification of this morphologically heterogeneous group, we analyzed complete plastomes of 57 samples representing all eleven genera of suborder Dennstaedtiineae...

Multimodality treatment for brain arteriovenous malformation in Mainland China: design, rationale, and baseline patient characteristics of a nationwide multicenter prospective registry

Yu Chen, Heze Han, Li Ma, Ruinan Li, Zhipeng Li, Debin Yan, Haibin Zhang, Kexin Yuan, Ke Wang, Yang Zhao, Yukun Zhang, Weitao Jin, Runting Li, Fa Lin, Xiangyu Meng, Qiang Hao, Hao Wang, Xun Ye, Shuai Kang, Hengwei Jin, Youxiang Li, Dezhi Gao, Shibin Sun, Ali Liu, Shuo Wang … & Yuanli Zhao
Abstract Background Brain arteriovenous malformation (AVM) is an important cause of hemorrhagic stroke in young adults, which can lead to severe neurological impairment. The registry of Multimodality treatment for brain ArTeriovenous malformation in mainland CHina (MATCH) is a national prospective registry to identify the natural history of AVMs in Asian population; to investigate traditional and emerging hemorrhagic predictors; and to explore the superiority of the multidisciplinary assessment in improving the long-term outcomes. Methods Consecutive AVM...

Additional file 2 of Gene loss, pseudogenization, and independent genome reduction in non-photosynthetic species of Cryptomonas (Cryptophyceae) revealed by comparative nucleomorph genomics

Jong Im Kim, Goro Tanifuji, Minseok Jeong, Woongghi Shin & John M. Archibald
Additional file 2: Table S1. Gene content of eight cryptophyte nucleomorph genomes. Table S2. Sequence similarities of hypothetical ORFs across eight cryptophyte nucleomorph genomes. Table S3. Conserved hypothetical ORFs (nORFs) in eight cryptophyte nucleomorph genomes.

Gene loss, pseudogenization, and independent genome reduction in non-photosynthetic species of Cryptomonas (Cryptophyceae) revealed by comparative nucleomorph genomics

Jong Im Kim, Goro Tanifuji, Minseok Jeong, Woongghi Shin & John M. Archibald
Abstract Background Cryptophytes are ecologically important algae of interest to evolutionary cell biologists because of the convoluted history of their plastids and nucleomorphs, which are derived from red algal secondary endosymbionts. To better understand the evolution of the cryptophyte nucleomorph, we sequenced nucleomorph genomes from two photosynthetic and two non-photosynthetic species in the genus Cryptomonas. We performed a comparative analysis of these four genomes and the previously published genome of the non-photosynthetic species Cryptomonas paramecium...

Fig.1.tif

Hui Cheng, Xinlin Chen, Zhong jincheng, Jia Li, Ping Qiu & Ke Wang
Supplemental materials

Supplementary document for Label-Free Measurement of Wall Shear Stress in Brain Venule and Arteriole Using Dual-Wavelength Third-Harmonic-Generation Line-Scanning Imaging - 6087953.pdf

Hui Cheng, Xinlin Chen, Zhong jincheng, Jia Li, Ping Qiu & Ke Wang
Supplemental methods

Data from: Phylogeny and classification of the East Asian Amitostigma alliance (Orchidaceae: Orchideae) based on six DNA markers

Ying Tang, Tomohisa Yukawa, Richard M. Bateman, Hong Jiang & Hua Peng
Background: Tribe Orchideae dominates the orchid flora of the temperate Northern Hemisphere but its representatives in East Asia had been subject to less intensive phylogenetic study than those in Eurasia and North America. Although this situation was improved recently by the molecular phylogenetic study of Jin et al., comparatively few species were analyzed from the species-rich and taxonomically controversial East Asian Amitostigma alliance. Here, we present a framework nrITS tree of 235 accessions of Orchideae...

Data from: Evolutionary origin of the Scombridae (tunas and mackerels): members of a Paleogene adaptive radiation with 14 other pelagic fish families

Masaki Miya, Matt Friedman, Takashi P. Satoh, Hirohiko Takeshima, Tetsuya Sado, Wataru Iwasaki, Yusuke Yamanoue, Masanori Nakatani, Kohji Mabuchi, Jun G. Inoue, Jan Yde Poulsen, Tsukasa Fukunaga, Yukuto Sato & Mutsumi Nishida
Uncertainties surrounding the evolutionary origin of the epipelagic fish family Scombridae (tunas and mackerels) are symptomatic of the difficulties in resolving suprafamilial relationships within Percomorpha, a hyperdiverse teleost radiation that contains approximately 17,000 species placed in 13 ill-defined orders and 269 families. Here we find that scombrids share a common ancestry with 14 families based on (i) bioinformatic analyses using partial mitochondrial and nuclear gene sequences from all percomorphs deposited in GenBank (10,733 sequences) and...

Data from: A taxonomic and molecular survey of the pteridophytes of the Nectandra Cloud Forest Reserve, Costa Rica

Joel Nitta, Atsushi Ebihara & Alan Smith
Floristic surveys are crucial to the conservation of biodiversity, but the vast majority of such surveys are limited to listing species names, and few take into account the evolutionary history of species. Here, we combine classical taxonomic and molecular phylogenetic (DNA barcoding) approaches to catalog the biodiversity of pteridophytes (ferns and lycophytes) of the Nectandra Cloud Forest Reserve, Costa Rica. Surveys were carried out over three field seasons (2008, 2011, and 2013), resulting in 176...

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Affiliations

  • National Museum of Nature and Science
    61
  • Beijing Tian Tan Hospital
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  • Yunnan University
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  • West China Hospital of Sichuan University
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  • Southwest Medical University
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  • Second Affiliated Hospital of Chongqing Medical University
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  • Chinese University of Hong Kong
    22
  • Shanghai University of Traditional Chinese Medicine
    22
  • Sichuan University
    22
  • Southern Medical University
    22