Article
Multidisciplinary Sciences
Alexandra A-T Weber, Jelena Rajkov, Kolja Smailus, Bernd Egger, Walter Salzburger
Summary: Understanding the dynamics of speciation is a central topic in evolutionary biology. In this study, researchers investigated morphological and genomic differentiation in African cichlid fish and found that genomic differentiation increased in the presence of divergent selection and drift. They also discovered parallel and antiparallel components in rapid adaptive divergence, and higher parallelism when ancestral populations were more similar. This research highlights the complementary roles of divergent selection and drift in speciation and parallel evolution.
Article
Multidisciplinary Sciences
W. Ross Silcock, Shari L. Schwartz, John U. Carlini, Stephen J. Dinsmore
Summary: This study analyzed variations in song patterns of Louisiana Waterthrush, identifying three distinct song types and confirming that most between-individual variation was in the number of notes and note sequence duration. The song types exhibit large-scale discrete geographic distributions that may be related to Pleistocene glacial boundaries, suggesting potential subpopulations with different evolutionary histories. Further investigation is needed to understand the implications of these song variations.
Article
Plant Sciences
Rui-Hong Wang, Zhao-Ping Yang, Zhi-Cheng Zhang, Hans Peter Comes, Zhe-Chen Qi, Pan Li, Cheng-Xin Fu
Summary: This study conducted a phylogeographic analysis of plants in the Qinghai-Tibet Plateau and surrounding regions, and found that the speciation and diversification of temperate steppes and deserts were closely related to the climate change during the Plio-Pleistocene period.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Ecology
Theo Busschau, Adriaan Jordaan, Werner Conradie, Savel R. Daniels
Summary: Comparative phylogeographic studies are lacking for southern African herpetofauna, despite their high diversity. This study statistically compared phylogeographic structure and divergence-time estimates among five co-distributed forest-living herpetofaunal taxa and identified congruent drivers of phylogeographic diversity.
JOURNAL OF BIOGEOGRAPHY
(2022)
Article
Plant Sciences
Mengli Han, Jingxue Zhang, Daxu Li, Shengnan Sun, Changbing Zhang, Chuanjie Zhang, Lijun Yan, Yongzhuo Guan, Lili Chen, Yuxia Guo, Minghong You, Wenlong Gou, Xinrui Li, Jiajun Yan, Shiqie Bai, Xuebing Yan
Summary: This study used specific-locus amplified fragment sequencing (SLAF-seq) to investigate the population genetic structure and demographic history of Elymus sibiricus populations on Qinghai-Tibetan Plateau (QTP). The results showed three distinct genetic groups and suggested that the current phylogeographical pattern of E. sibiricus is influenced by environmental changes due to the uplift of the QTP, geographic distance between populations, and geographical barriers.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Entomology
Jinyu Li, Longqing Shi, Wei Chen, Yi Mao, Liette Vasseur, Geoff Gurr, Minsheng You, Shijun You
Summary: The study on the tea green leafhopper found that climatic differences play a significant role in the subpopulation differentiation of the leafhopper, which explains the observed increase in outbreak frequency under climate change. This study also demonstrates the usefulness of molecular genetic approaches in studying the effects of environmental heterogeneity on natural population genetic variation.
ENTOMOLOGIA GENERALIS
(2023)
Article
Plant Sciences
Peng-Bin Dong, Ling-Juan Wang, Yun Jia, Zhong-Hu Li, Hong-Yan Wang, Feng-Xia Guo, Yuan Chen
Summary: This study integrated chloroplast genomes and ecological factors to investigate ecological speciation and species divergence in Paeonia rockii, an endemic rare peony in China. The results suggest that the two subspecies of P. rockii have responded strongly to climate change in the past and are predicted to have significantly reduced suitable distribution areas in the future.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Ecology
Jake Goodall, Kristen Marie Westfall, Hildur Magnusdottir, Snaebjorn Palsson, Erla Bjork Ornolfsdottir, Zophonias O. Jonsson
Summary: Buccinum undatum, a subtidal gastropod in the North Atlantic, shows clear spatial genetic structure with high differentiation between Canadian and European populations, and weak but significant genetic structuring within Iceland, the Faroe Islands, and England. Genetic structure in Iceland is correlated with shell shape and color frequency, making this species a promising model for future genome-wide association studies.
ECOLOGY AND EVOLUTION
(2021)
Article
Biochemistry & Molecular Biology
Weitao Chen, Nicolas Hubert, Yuefei Li, Denggao Xiang, Xingwei Cai, Shuli Zhu, Jiping Yang, Chuanjiang Zhou, Xinhui Li, Jie Li
Summary: Geographical scale affects the efficiency of DNA barcoding by influencing genetic distances and uncovering hidden diversity among species. A study on Culterinae subfamily provides new insights into taxonomic and phylogeographical aspects, revealing cryptic diversity and mismatches between morphological and molecular delimitations.
Article
Multidisciplinary Sciences
Ezequiel Koile, Simon J. Greenhill, Damian E. Blasi, Remco Bouckaert, Russell D. Gray
Summary: The Bantu expansion, which transformed sub-Saharan Africa in terms of language, economy, and culture, was reconstructed using a break-away geographical diffusion model with augmented geographic data. The findings suggest an expansion of the Bantu language family through Central African tropical forests over 4000 years ago, predating the opening of the Sangha River Interval.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Fisheries
Nadia Sandoval Laurrabaquio-Alvarado, Pindaro Diaz-Jaimes, Silvia Hinojosa-Alvarez, Maria del Pilar Blanco-Parra, Douglas H. Adams, Juan Carlos Perez-Jimenez, J. Leonardo Castillo-Geniz
Summary: A highly divergent lineage of bull shark was reported for the first time in the Caribbean Sea, indicating a discrete population in Central America due to a phylogeographic break.
JOURNAL OF FISH BIOLOGY
(2021)
Article
Biochemical Research Methods
Pedro G. Nachtigall, Felipe G. Grazziotin, Inacio L. M. Junqueira-de-Azevedo
Summary: MITGARD is an automated pipeline that reliably recovers mitochondrial genomes from RNA-seq data of various sources. The tool can reconstruct mitogenomes across different species and sequencing schemes, demonstrating its effectiveness even in scenarios of low-sequencing depth. Additionally, MITGARD's use of phylogenetically related references allows for the recovery of entire mitogenomes or most mitochondrial genes, making it valuable for biodiversity projects and evolutionary studies.
BRIEFINGS IN BIOINFORMATICS
(2021)
Article
Marine & Freshwater Biology
Apolline Chabenat, Cecile Bellanger, Thomas Knigge
Summary: Juvenile crabs of Carcinus maenas exposed to antidepressants, particularly a combination of FLX and VEN, displayed altered color change patterns and enhanced locomotor activity, which may have long-term impacts on their survival in marine environments.
AQUATIC TOXICOLOGY
(2021)
Article
Plant Sciences
Junchu Peng, Xiangguang Ma, Hang Sun
Summary: This study focuses on two genera of plant species in the Sino-Himalayan region and explores how environmental changes have accelerated lineage diversification through ancient allopatry and ecological divergence. The research findings reveal the patterns of speciation and divergence processes, as well as the influence of geographical and climatic factors on genetic distance and population structure.
Article
Ecology
Lucas Torres, Eric Pante, Jacob Gonzalez-Solis, Amelia Viricel, Cecile Ribout, Frank Zino, Will MacKin, Carine Precheur, Julie Tourmetz, Licia Calabrese, Teresa Militao, Laura Zango, Hadoram Shirihai, Vincent Bretagnolle
Summary: Seabirds, particularly Procellariiformes, are highly mobile organisms with a great capacity for long dispersal, though simultaneously showing high philopatry, resulting in contrasting patterns of genetic population structure. Factors such as landmasses, isolation by distance, segregation between breeding and nonbreeding zones, and oceanographic conditions contribute to the differentiation patterns observed in seabirds. The differentiation among populations is influenced by historical and current variation in sea surface temperatures.
ECOLOGY AND EVOLUTION
(2021)
Article
Automation & Control Systems
Yupeng Liu, Yushan Liu, Baoming Ge, Haitham Abu-Rub
IEEE TRANSACTIONS ON INDUSTRIAL INFORMATICS
(2020)
Article
Engineering, Electrical & Electronic
Mingzhu Guo, Yushan Liu, Baoming Ge, Shuo Liu, Xiao Li, Fernando J. T. E. Ferreira, Anibal T. de Almeida
INTERNATIONAL JOURNAL OF CIRCUIT THEORY AND APPLICATIONS
(2020)
Article
Biology
Boping Tang, Daizhen Zhang, Haorong Li, Senhao Jiang, Huabin Zhang, Fujun Xuan, Baoming Ge, Zhengfei Wang, Yu Liu, Zhongli Sha, Yongxu Cheng, Wei Jiang, Hui Jiang, Zhongkai Wang, Kun Wang, Chaofeng Li, Yue Sun, Shusheng She, Qiang Qiu, Wen Wang, Xinzheng Li, Yongxin Li, Qiuning Liu, Yandong Ren
Article
Genetics & Heredity
Boping Tang, Zhongkai Wang, Qiuning Liu, Huabin Zhang, Senhao Jiang, Xinzheng Li, Zhengfei Wang, Yue Sun, Zhongli Sha, Hui Jiang, Xugan Wu, Yandong Ren, Haorong Li, Fujun Xuan, Baoming Ge, Wei Jiang, Shusheng She, Hongying Sun, Qiang Qiu, Wen Wang, Qun Wang, Gaofeng Qiu, Daizhen Zhang, Yongxin Li
FRONTIERS IN GENETICS
(2020)
Article
Genetics & Heredity
Tingting Qi, Jun Liu, Peisong Zhao, Baoming Ge, Qiuning Liu, Senhao Jiang, Zhengfei Wang, Huabin Zhang, Boping Tang, Ge Ding, Daizhen Zhang
Article
Biochemistry & Molecular Biology
Boping Tang, Zhongkai Wang, Qiuning Liu, Zhengfei Wang, Yandong Ren, Huayun Guo, Tingting Qi, Yuetian Li, Huabin Zhang, Senhao Jiang, Baoming Ge, Fujun Xuan, Yue Sun, Shusheng She, Tin Yam Chan, Zhongli Sha, Hui Jiang, Haorong Li, Wei Jiang, Yanli Qin, Kun Wang, Qiang Qiu, Wen Wang, Xinzheng Li, Ngan Kee Ng, Daizhen Zhang, Yongxin Li
Summary: This study successfully assembled the first chromosome-level genome of the blue king crab, revealing the reasons behind its large genome size and showing its close relationship with Eubrachyura crabs. Population history analysis indicated a sharp decline followed by a significant increase in the effective population of the blue king crab. Furthermore, gene families related to developmental pathways were found to be expanded in the genome, contributing to the environmental adaptation and unique body plan evolution of the blue king crab.
MOLECULAR ECOLOGY RESOURCES
(2021)
Article
Biotechnology & Applied Microbiology
Yue-Tian Li, Bo-Ping Tang, Si-Pei Zhang, Ying-Yu Tang, Gang Wang, Sen-Hao Jiang, Bao-Ming Ge, Dai-Zhen Zhang, Chun-Lin Zhou, Qiu-Ning Liu, Mei-Ling Zhang
Summary: The study on Sesarmops sinensis immune response to PGN stimulation revealed a large number of differentially expressed genes, providing important insights for further understanding the immune system of this crab species.
Article
Agriculture, Multidisciplinary
Baoming Ge, Jing Zhou, Ruiping Yang, Senhao Jiang, Li Yang, Boping Tang
Summary: Land reclamation, an ancient practice, has evolved over time due to population growth and societal changes. This study focused on a reclaimed area on the coast of the Yellow Sea in Jiangsu, China, approximately 100 years ago, revealing that lower-intensity land use conversion can increase soil macrofaunal biodiversity.
AGRICULTURE ECOSYSTEMS & ENVIRONMENT
(2021)
Article
Geosciences, Multidisciplinary
Baoming Ge, Ruiping Yang, Li Yang, Senhao Jiang, Boping Tang
Summary: This study in the coastal area of the Yellow Sea, China, identified a 500-year soil chronosequence and examined the changes in soil properties and macrofaunal communities in croplands of different ages. The results showed significant increases in soil organic carbon, total nitrogen, and total phosphorus, while soluble salinity and pH decreased along the soil age gradient. Soil macrofaunal communities were closely associated with soil age, driven mainly by changes in soil nutrient status.
Article
Geosciences, Multidisciplinary
Yuan Sun, Cuiting Wang, Han Y. H. Chen, Qiuning Liu, Baoming Ge, Boping Tang
Summary: Global warming increases carbon concentrations in plant leaves, stems, and microbial biomass, as well as nitrogen concentrations in stems, while decreasing soil carbon concentrations and carbon-to-nitrogen ratios. These effects are more pronounced with longer duration and greater magnitude of warming.
Article
Soil Science
Ruiping Yang, Yongkui Qi, Li Yang, Tao Chen, Aixing Deng, Jun Zhang, Zhenwei Song, Baoming Ge
Summary: The experiment of rice-based double cropping system in Jiangsu Province, China revealed that adopting rotation regimes with lower intensity of land use can improve soil macrofaunal biodiversity and trophic structure complexity, especially in fields with tiny vetch and fallow. Soil organic carbon plays a key role in shaping soil environment and regulating soil macrofaunal communities, and has been significantly improved through the experiment.
Article
Agronomy
Shuang Wang, Zhangyan Zhu, Ruiping Yang, Li Yang, Baoming Ge
Summary: This study compared the differences in soil properties and stoichiometry among five different land-use types in a reclaimed coastal area. The results showed significant variation in soil properties and stoichiometry among the land-use types. Paddy and vegetable garden soils had higher organic carbon, total nitrogen, and total phosphorus contents, while upland and upland-forest soils had lower contents. The stoichiometric characteristics presented a narrow range of ratios, similar to the stoichiometry of average Chinese cropland soils.
Article
Energy & Fuels
Mingzhu Guo, Yushan Liu, Baoming Ge, Xiao Li, Anibal T. de Almeida, Fernando J. T. E. Ferreira
Summary: In this paper, a novel variable-voltage, variable-frequency, dual, three-level, quasi-Z-source, indirect matrix converter topology is proposed, including a detailed description of a modulation method and a control strategy for three-phase motors with open-ended windings. The proposed power drive system supports bidirectional power flow and has a combined control of DC-link voltage and output AC voltage frequency. The experimentally validation on a 4-kW power drive system shows that the proposed system can double the voltage output gain and reduces common-mode component, low-order harmonic content, peak values, and dv/dt of the motor phase voltage, leading to various advantages including lower winding insulation voltage stress, lower harmonic losses in the motor, and ride-through capability over voltage sags in the mains.
IEEE TRANSACTIONS ON ENERGY CONVERSION
(2023)
Article
Agriculture, Dairy & Animal Science
Shuang Wang, Zhangyan Zhu, Li Yang, Hongshan Li, Baoming Ge
Summary: Urban green areas are vital for biodiversity in urban ecosystems. Pill bugs, as ecological bio-indicators, are widely distributed and can represent soil health. This study examines the relationship between pill bugs and soil properties in urban green spaces. The characteristics of pill bug populations vary significantly among different habitats, with pH and soil organic matter being key factors in explaining the variation in body size. Positive correlations are observed between body length and body weight.
Article
Environmental Sciences
Li Yang, Jingyi Shi, Rui Pan, Ruiping Yang, Hongshan Li, Shuang Wang, Baoming Ge
Summary: In this study, a classification of Spartina alterniflora invasion stages on the coast of the Yellow Sea in China was conducted, and its impacts on Bullacta caurina distribution were examined. The results showed that invasion increased vegetation coverage and organic matter content, while decreasing porewater salinity. The density of B. caurina decreased after the initial invasion stage of S. alterniflora. Additionally, organic matter content and chlorophyll a concentration were identified as predictors of B. caurina density.
MARINE ENVIRONMENTAL RESEARCH
(2023)
Article
Genetics & Heredity
Xiangge Meng, Chengping Li, Yu Hei, Xiang Zhou, Guoli Zhou
Summary: The study used IVT-SAPAS sequencing to analyze the dynamic changes of APA sites during adipogenesis in bovine subcutaneous preadipocytes and intramuscular preadipocytes. The results showed that APA plays an important role in adipocyte differentiation, and UTR-APA switching genes have different trends, with intramuscular preadipocytes tending to use shorter 3'UTR for differentiation. TRIB3, WWTR1, and INSIG1 play important roles in intramuscular preadipocyte differentiation.
Article
Genetics & Heredity
S. Alizadeh, S. Khamse, N. Tajeddin, H. R. Khorram Khorshid, A. Delbari, M. Ohadi
Summary: This study identifies a specific genotype at a CG-rich trinucleotide short tandem repeat (STR) locus that is associated with late-onset neurocognitive disorders such as Alzheimer's disease (AD).
Article
Genetics & Heredity
Shougang Liu, Zhe Zhuang, Fanghua Liu, Xiuqing Yuan, Zeqiao Zhang, Xiaoqian Liang, Xinhui Li, Yongfeng Chen
Summary: This study investigated the effect and mechanism of RPL9 and TIFA in scalp psoriasis, and identified RPL9 as a potential therapeutic target for scalp psoriasis.
Article
Genetics & Heredity
Shiting Wang, Jiaqi Chen, Zhichao Jin, Ying Xing, Ruiping Wang
Summary: This study suggests a causal association between hair color and skin cancers, with light hair colors (red, blonde, and light brown) being associated with an increased risk and dark brown hair being associated with a decreased risk.
Article
Genetics & Heredity
Joseph Hawadak, Loick Pradel Kojom Foko, Rodrigue Roman Dongang Nana, Karmveer Yadav, Veena Pande, Aparup Das, Vineeta Singh
Summary: This study investigates the genetic diversity and natural selection of the Pfama-1 gene in Plasmodium falciparum isolates from Cameroon. The study finds a considerable nucleotide and haplotype diversity, as well as specific mutations in Cameroonian isolates. Positive diversifying selection and the identification of selected codon sites suggest the potential implication of these genetic variations in host immune pressure and parasite-binding complex modulation. The findings provide valuable baseline data for malaria vaccine design.
Article
Genetics & Heredity
Emily Biernat, Mansi Verma, Chhabi K. Govind
Summary: RSC is an essential ATP-dependent chromatin remodeling complex in Saccharomyces cerevisiae. It regulates nucleosome-depleted regions (NDRs) by sliding flanking nucleosomes away from NDRs. Depletion of RSC leads to nucleosome encroachment in NDRs and transcription initiation defects. The study compared the effects of catalytic-dead Sth1 and rapid depletion of Sth1 on transcription. Rapid depletion of Sth1 reduces recruitment of TBP and Pol II, while the catalytic-dead mutant exhibits a severe reduction in TBP binding but accumulates Pol II in coding regions. The results suggest a role for RSC in transcription elongation and termination processes.
Article
Genetics & Heredity
Yunxiao Wei, Yuhan Song, Muhammad Aamir Khan, Chengzhen Liang, Zhigang Meng, Yuan Wang, Sandui Guo, Rui Zhang
Summary: This study analyzed the GhTPP protein family in upland cotton for the first time and identified the important role of GhTPPA_2 in regulating sugar metabolism, improving soluble sugar accumulation, and drought stress tolerance.
Article
Genetics & Heredity
Yannan Geng, Rui Shao, Tiantong Xu, Lilong Zhang
Summary: A novel risk model based on SCUBE3, TNNC1, SPON1, SEPT12 and ULBP1 genes was developed for predicting PMOP risk, with higher risk score indicating higher risk of suffering from PMOP. Significant differences in signaling pathway activities were observed between the high-risk score group and the low-risk score group.
Article
Genetics & Heredity
Randy P. Williams, Corina Lesseur, Haoxiang Cheng, Qian Li, Maya Deyssenroth, Christopher D. Molteno, Ernesta M. Meintjes, Sandra W. Jacobson, Joseph L. Jacobson, Helen Wainwright, Ke Hao, Jia Chen, R. Colin Carter
Summary: The study suggests that heavy alcohol exposure during pregnancy may impact the proportion of fetal placental villi macrophages and increase the expression of inflammatory genes. Further research is needed to explore these effects and evaluate the potential functional roles of placental inflammation in FASD.
Article
Genetics & Heredity
Lvjing Luo, Lishuang Sun, Shu Li, Huiting Liu, Zhengyu Chen, Shi Huang, Yinyin Mo, Genliang Li
Summary: This study analyzed the expression of Ptpn1 and miR-124-3p in testicular tissues of mice and investigated their regulatory relationship. The results showed that Ptpn1 expression was up-regulated in adult mouse testis compared to juvenile mouse testis, while miR-124-3p expression showed an opposite pattern. Further analysis suggested that the down-regulation of miR-124-3p may contribute to the high expression of Ptpn1 in adult mouse testis.
Article
Genetics & Heredity
Gairui Li, Dan Zhao, Xiaolin Peng, Yashuang Zhao
Summary: MiRNA-22 shows potential as a candidate for early diagnosis of colorectal cancer (CRC). The study found higher miR-22 expression levels in the CRC and CRA groups, suggesting its potential as a biomarker for CRC early screening.
Article
Genetics & Heredity
Zhongqiu Zhu, Qianting Yang, Xiaoying Tian, Da Man, Jian Wang, Junfang Zhang, Bingshe Han
Summary: This study constructed a ceRNA network mediated by lncRNAs in cold-acclimated zebrafish ZF4 cells and revealed that upregulation of MSTRG3207 promotes apoptosis by sponging dre-miR-736 during cold acclimation.
Article
Genetics & Heredity
Weitao Chen, Denggao Xiang, Shang Gao, Shuli Zhu, Zhi Wu, Yuefei Li, Jie Li
Summary: Dam construction has negatively impacted the genetic diversity and structure of fish populations. This case study on the endangered Hemibagrus guttatus found low genetic diversity, high levels of inbreeding, and decreasing population size in fragmented populations. Genetic structure and differentiation were also observed, indicating the influence of dams on these fish populations.
Article
Genetics & Heredity
Pooja Singh, Debleena Guin, Bijay Pattnaik, Ritushree Kukreti
Summary: Through systematic literature review and meta-analysis, it was found that idiopathic pulmonary fibrosis is significantly associated with 222 polymorphisms in 118 genes. Four polymorphisms - rs35705950/MUC5B, rs2736100/TERT, rs2076295/DSP, and rs111521887/TOLLIP, exhibited substantial epidemiological evidence supporting their association with IPF risk.
Article
Genetics & Heredity
Jianping Zhang, Zhijun Cai, Fanzhe Feng, Yufeng Peng, Yi Cui, Yongiqing Xu
Summary: This study found that exosomes secreted by young BMSCs can promote the healing of tendon-bone interface after rotator cuff tears. These exosomes can improve extracellular matrix remodeling, osteogenic differentiation, angiogenesis, and stemness of tendon-derived stem cells (TDSCs). The exosomes from young BMSCs have better effects compared to those from aged BMSCs.