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Pleistocene glaciation advances the cryptic speciation of Stellera chamaejasme *** a major biodiversity hotspot

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Journal of Integrative Plant Biology 2024年第6期66卷 1192-1205页

作者： Santosh Kumar Rana Hum Kala Rana Jacob BLandis Tianhui Kuang Juntong Chen Hengchang Wang Tao Deng Charles C.Davis Hang Sun CAS Key Laboratory for Plant Diversity and Biogeography of East Asia Kunming Institute of BotanyChinese Academy of SciencesKunming 650201China arkansas biosciences institute Arkansas State UniversityJonesboroArkansas 72401USA School of Integrative Plant Science Section of Plant Biology and the L.H.Bailey HortoriumCornell UniversityIthacaNew York 14853USA BTI Computational Biology Center Boyce Thompson InstituteIthacaNew York 14853USA CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture Chinese Academy of SciencesWuhan Botanical GardenWuhan 430074China department of Organismic and Evolutionary Biology HerbariaHarvard UniversityCambridgeMassachusetts 02138USA

The mountains of Southwest China comprise a significant large mountain range and biodiversity hotspot imperiled by global climate *** high species diversity in this mountain system has long been attributed to a complex set of factors,and recent large-scale macroevolutionary investigations have placed a broad timeline on plant diversification that stretches from 10 million years ago(Mya)to the *** our increasing understanding of the temporal mode of speciation,finer-scale populationlevel investigations are lacking to better refine these temporal trends and illuminate the abiotic and biotic influences of cryptic *** is largely due to the dearth of organismal sampling among closely related species and populations,spanning the incredible size and topological heterogeneity of this *** study dives into these evolutionary dynamics of speciation using genomic and ecomorphological data of Stellera chamaejasme *** identified four previously unrecognized cryptic species having indistinct morphological traits and large metapopulation of evolving lineages,suggesting a more recent diversification(~2.67-0.90 Mya),largely influenced by Pleistocene glaciation and biotic *** factors likely influenced allopatric speciation and advocated cyclical warming–cooling episodes along elevational gradients during the *** study refines the evolutionary timeline to be much younger than previously implicated and raises the concern that projected future warming may influence the alpine species diversity,necessitating increased conservation efforts.

关键词： cryptic speciation glacial-interglacial Hengduan Mountains north-south migration Stellera chamaejasme

In vivo measurement of NADH fluorescence lifetime in skeletal muscle via -ber-coupled time-correlated single photon counting

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Journal of Innovative Optical Health sciences 2024年第1期17卷 121-134页

作者： Kathryn M.Priest Jacob V.Schluns Nathania Nischal Colton L.Gattis Jeffrey C.Wolchok Timothy J.Muldoon department of Biomedical Engineering University of arkansas FayettevilleARUSA

Nicotinamide adenine dinucleotide(NADH)is a cofactor that serves to shuttle electrons during metabolic processes such as glycolysis,the tricarboxylic acid cycle,and oxidative phosphorylation(OXPHOS).NADH is autofluorescent,and itsfluorescence lifetime can be used to infer metabolic dynamics in living ***-coupled time-correlated single photon counting(TCSPC)equipped with an implantable needle probe can be used to measure NADH lifetime in vivo,enabling investigation of changing metabolic demand during muscle contraction or tissue *** study illustrates a proof of concept for point-based,minimally-invasive NADHfluorescence lifetime measurement in *** muscle loss(VML)injuries were created in the left tibialis anterior(TA)muscle of male Sprague Dawley *** lifetime measurements were collected before,during,and after a 30 s tetanic contraction in the injured and uninjured TA muscles,which was subsequently-t to a biexponential decay model to yield a metric of NADH utilization(cytoplasmic vs protein-bound NADH,the A11/A22 ratio).On average,this ratio was higher during and after contraction in uninjured muscle compared to muscle at rest,suggesting higher levels of free NADH in contracting and recovering muscle,indicating increased rates of *** injured muscle,this ratio was higher than uninjured muscle overall but decreased over time,which is consistent with current knowledge of inflammatory response to injury,suggesting tissue regeneration has *** data suggest that-ber-coupled TCSPC has the potential to measure changes in NADH binding in vivo in a minimally invasive manner that requires further investigation.

关键词： Glycolysis oxidative phosphorylation energy metabolism volumetric muscle loss

Manipulation of photosensory and circadian signaling restricts phenotypic plasticity in response to changing environmental conditions in Arabidopsis

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Molecular Plant 2024年第9期17卷 1458-1471页

作者： Martin William Battle Scott Fraser Ewing Cathryn Dickson Joseph Obaje Kristen N.Edgeworth Rebecca Bindbeutel Rea LAntoniou-Kourounioti Dmitri A.Nusinow Matthew Alan Jones Plant Science Group School of Molecular BiosciencesUniversity of GlasgowGlasgow G128QQUK Danforth Plant Science Center St.LouisMO 63132USA department of biological and Biomedical sciences Washington University in St.LouisSt.LouisMO 63130USA Present address:School of biological and Environmental sciences Liverpool John Moores UniversityLiverpool L22QPUK

Plants exploit phenotypic plasticity to adapt their growth and development to prevailing environmental *** of light and temperature signals is aided by the circadian system,which provides a temporal *** plasticity provides a selective and competitive advantage in nature but is obstructive during large-scale,intensive agricultural practices since economically important traits(including vegetative growth and flowering time)can vary widely depending on local environmental *** prevents accurate prediction of harvesting times and produces a variable *** this study,we sought to restrict phenotypic plasticity and circadian regulation by manipulating signaling systems that govern plants'responses to environmental *** modeling of plant growth and develop-ment predicted reduced plant responses to changing environments when circadian and light signaling pathways were *** tested this prediction by utilizing a constitutively active allele of the plant photoreceptor phytochrome B,along with disruption of the circadian systemvia mutation of *** found that these manipulations produced plants that are less responsive to light and temper-ature cues and thus fail to anticipate *** engineered plants have uniform vegetative growth and flowering time,demonstrating how phenotypic plasticity can be limited while maintaining plant *** has significant implications for future agriculture in both open fields and controlled environments.

关键词： circadian developmental plasticity phenotypic plasticity external coincidence light temperature

New indices to balanceα-diversity against tree size inequality

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Journal of Forestry Research 2024年第1期35卷 229-237页

作者： Li Zhang Brady K.Quinn Cang Hui Meng Lian Johan Gielis Jie Gao Peijian Shi College of Ecology and Environment Bamboo Research InstituteNanjing Forestry University159 Longpan RoadNanjing 210037People’s Republic of China Fisheries and Oceans Canada Andrews Biological Station125 Marine Science DriveSt.AndrewsNB E5B 0E4Canada department of Mathematical sciences Centre for Invasion BiologyStellenbosch UniversityMatieland 7602South Africa Mathematical and Physical biosciences African Institute for Mathematical SciencesCape Town 7945South Africa department of biosciences Engineering University of AntwerpB-2020 AntwerpBelgium College of Life Science Xinjiang Normal University102 Xinyi RoadUrumqi 830054People’s Republic of China

The number and composition of species in a community can be quantified withα-diversity indices,including species richness(R),Simpson’s index(D),and the Shannon-Wiener index(H΄).In forest communities,there are large variations in tree size among species and individu-als of the same species,which result in differences in eco-logical processes and ecosystem ***,tree size inequality(TSI)has been largely neglected in studies using the available diversity *** TSI in the diameter at breast height(DBH)data for each of 99920 m×20 m forest census quadrats was quantified using the Gini index(GI),a measure of the inequality of size *** generalized performance equation was used to describe the rotated and right-shifted Lorenz curve of the cumulative proportion of DBH and the cumulative proportion of number of trees per *** also examined the relationships ofα-diversity indices with the GI using correlation *** generalized performance equation effectively described the rotated and right-shifted Lorenz curve of DBH distributions,with most root-mean-square errors(990 out of 999 quadrats)being<*** were significant positive correlations between each of threeα-diversity indices(i.e.,R,D,and H’)and the ***,the total abundance of trees in each quadrat did not significantly influence the *** means that the TSI increased with increasing spe-cies ***,two new indices are proposed that can balanceα-diversity against the extent of TSI in the com-munity:(1−GI)×D,and(1−GI)×H’.These new indices were significantly correlated with the original D and H΄,and did not increase the extent of variation within each group of *** study presents a useful tool for quantifying both species diversity and the variation in tree sizes in forest communities,especially in the face of cumulative species loss under global climate change.

关键词： Diameter at breast height(DBH) Gini index Shannon-Wiener index Simpson’s index Quadrat Tree size

Decoding the fruit microbiome:A climate smart strategy to manage postharvest decays

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Horticultural Plant Journal 2024年第5期10卷 1061-1072页

作者： Manori Kuruppu Kong Lih Ling Phebe Ding Khairulmazmi Ahmad Asgar Ali Yasmeen Siddiqui Laboratory of Sustainable Agronomy and Crop Protection Institute of Plantation StudiesUniversiti Putra MalaysiaSerdang 43400Malaysia department of Plant Protection Faculty of AgricultureUniversiti Putra MalaysiaSerdang 43400Malaysia Centre of Excellence for Post-harvest Biotechnology(CEFB) School of BiosciencesUniversity of Nottingham MalaysiaJalan Broga43500 SemenyihSelangorMalaysia department of biological sciences College of ScienceKing Faisal UniversityAl Ahsa31982Saudi Arabia

There is an urgent necessity to shift our diets toward those rich in fruits and vegetables and at reduce postharvest losses of *** 20%e50%of fruits and vegetables are lost due to poor postharvest handling and pathogen infections in developing countries while it was estimated as 5%e35%in developed *** fruits have evolved with a plethora of microorganisms having important roles in maintaining fruit ***,little information is available on the dynamics,structure,and functional capacities of underpinning fruit *** present review discussed environmental conditions favoring fruit-harbored antagonists and their different modes of action for suppressing postharvest pathogens in *** also provides information on omics technologies such as next-generation sequencing(NGS),metaproteomics,metatranscriptomic,and metabolomics studies to characterize fruit *** the advent of NGS and meta-omics technologies,microbiome research could bring remarkable development and understanding in succeeding biological *** addition,they may provide us with a fundamental understanding of microclimate requirements for fruit microbiome establishment and microbiome shifts during post-harvest storage,which would be advantageous in developing composite biocontrol treatments for post-harvest decay management.

关键词： biological control Food loss Fruit microbiome Meta-omics Microclimate Postharvest decay

Plant aquaporins:Their roles beyond water transport

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The Crop Journal 2024年第3期12卷 641-655页

作者： Qi Sun Xin Liu Yoshichika Kitagawa Giuseppe Calamita Xiaodong Ding Key Laboratory of Agricultural biological Functional Genes Northeast Agricultural UniversityHarbin 150030HeilongjiangChina Graduate School of Bioresource sciences Akita Prefectural UniversityAkita 010-0195Japan department of biosciences Biotechnologies and BiopharmaceuticsUniversity of Bari‘Aldo Moro’I-70125 BariItaly Key Laboratory of Soybean Biology of Chinese Education Ministry Northeast Agricultural UniversityHarbin 150030HeilongjiangChina

Compared to other organisms,plants have evolved a greater number of aquaporins with diverse substrates and functions to adapt to ever-changing environmental and internal stimuli for growth and *** aquaporins were initially identified as channels that allow water molecules to cross biological membranes,progress has been made in identifying various novel permeable *** studies have characterized the versatile physiological and biophysical functions of plant ***,we review the recent reports that highlight aquaporin-facilitated regulation of major physiological processes and stress tolerance throughout plant life cycles as well as the potential prospects and possibilities of applying aquaporins to improve agricultural productivity,food quality,environmental protection,and ecological conservation.

关键词： Plant aquaporin Substrate Physiological function Agriculture and environment

Risk of infection with arboviruses in a healthy population in Pakistan based on seroprevalence

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Virologica Sinica 2024年第3期39卷 369-377页

作者： Shengyao Chen Muhammad Saqib Hafiz Sajid Khan Yuan Bai Usman Ali Ashfaq Muhammad Khalid Mansoor Abulimti Moming Jing Liu Min Zhou Saifullah Khan Niazi Qiaoli Wu Awais-Ur-Rahman Sial Shuang Tang Muhammad Hassan Sarfraz Aneela Javed Sumreen Hayat Mohsin Khurshid Iahtasham Khan Muhammad Ammar Athar Zeeshan Taj Bo Zhang Fei Deng Ali Zohaib Shu Shen Key Laboratory of Virology and National Virus Resource Center Wuhan Institute of VirologyChinese Academy of SciencesWuhan 430071China University of Chinese Academy of sciences Beijing 100049China Faculty of Veterinary Science University of Agriculture FaisalabadFaisalabad 38040Pakistan The Children's Hospital Faisalabad 38000Pakistan department of Bioinformatics and Biotechnology Government College University FaisalabadFaisalabad 38000Pakistan f department of Microbiology Faculty of Veterinary and Animal SciencesThe Islamia University of BahawalpurBahawalpur 63100Pakistan Hubei Jiangxia Laboratory Wuhan 430200China Key Laboratory of Special Pathogens and Biosafety Wuhan Institute of VirologyCenter for Biosafety Mega-ScienceChinese Academy of SciencesWuhan 430071China Armed Forces institute of Pathology(AFIP) Rawalpindi 46000Pakistan department of Clinical Studies Faculty of Veterinary&Animal SciencesPir Mehr Ali Shah Arid Agriculture UniversityRawalpindi 46300Pakistan institute of Microbiology Government College University FaisalabadFaisalabad 38000Pakistan l Atta-ur-Rahman School of Applied biosciences National University of Science and TechnologyIslamabad 44000Pakistan department of Clinical sciences University of Veterinary and Animal SciencesLahore Sub-campusJhang 35200Pakistan department of Molecular Pathology National Medical Center DHA Phase 1Karachi 75500Pakistan

Infectious diseases caused by arboviruses are a public health concern in ***,studies on data prevalence and threats posed by arboviruses are *** study investigated the seroprevalence of arboviruses in a healthy population in Pakistan,including severe fever with thrombocytopenia syndrome virus(SFTSV),Crimean-Congo hemorrhagic fever virus(CCHFV),Tamdy virus(TAMV),and Karshi virus(KSIV)based on a newly established luciferase immunoprecipitation system(LIPS)assays,and Zika virus(ZIKV)by enzyme-linked immunosorbent assays(ELISA).Neutralizing activities against these arboviruses were further examined from the antibody positive *** results showed that the seroprevalence of SFTSV,CCHFV,TAMV,KSIV,and ZIKV was 17.37%,7.58%,4.41%,1.10%,and 6.48%,respectively,and neutralizing to SFTSV(1.79%),CCHFV(2.62%),and ZIKV(0.69%)were identified,as well as to the SFTSV-related Guertu virus(GTV,0.83%).Risk factors associated with the incidence of exposure and levels of antibody response were ***,co-exposure to different arboviruses was demonstrated,as thirty-seven individuals were having antibodies against multiple viruses and thirteen showed neutralizing ***,individuals aged40 years,and outdoor workers had a high risk of exposure to *** these results reveal the substantial risks of infection with arboviruses in Pakistan,and indicate the threat from co-exposure to multiple *** findings raise the need for further epidemiologic investigation in expanded regions and populations and the necessity to improve health surveillance in Pakistan.

关键词： Arbovirus Pakistan Seroprevalence Tick-borne virus Mosquito-borne virus

Antibody Pattern: Correlation of Age and Gender in ANA and Anti-ds-DNA Prevalence

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Journal of Clinical and Nursing Research 2024年第6期8卷 373-381页

作者： Usama Ahmed Hijazi Mallick Amber Khan Muhammad Zubair department of Medicine School of Biomedical EngineeringShenzhen University Medical SchoolShenzhen 518060China Dow International Medical College Karachi Pakistan department of biosciences Shaheed Zulfikar Ali Bhutto Institute of Science and Technology(SZABIST)KarachiPakistan institute of biological sciences Khwaja Fareed University of Engineering and Information TechnologyRahim Yar KhanPakistan

The study was designed to find the prevalence of ANA antibodies and anti-dsDNA antibodies in samples tested at AFIP Rawalpindi and their correlation with age and gender and to find positive and negative predictive values of ANA *** this purpose,twelve thousand nine hundred sixty-seven(12,967)patients were analyzed for ANA with four hundred sixty-eight(468)healthy samples tested as control and four thousand seven hundred three(4,703)patients tested for ds-DNA *** data of all samples tested by indirect immunofluorescence(IF)for ANA antibodies and dsDNA antibodies was *** address positive and negative predictive values another control group(autoimmunity not suspected)of serum samples was taken from the healthy *** the first group,age,gender,ANA antibodies and ds-DNA antibodies results(both tests performed by IIF)data was collected from a computer record cell;for the second control group,ANA antibodies were performed by IIF.12,967 and 4,703 samples(Group 1)were tested for ANA antibodies and dsDNA antibodies,respectively,during this period.1,119(9%)and 99(2%)were found positive for ANA antibodies and ds DNA *** these positive samples,850(76%)and 73(74%)were females *** predisposition towards autoimmunity(ANA)was found significant with a P value of(P=0.001).Relation of age was also found significant with anti-ANA antibodies with a P value of(P=0.001).This study shows a negative correlation between age(P=0.025)and gender(P=0.001)with anti-dsDNA which is also *** prevalence was found below the mean age of 38 years(SD±16.635)for ANA antibodies and the mean age of 35 years(SD±15.066)for ds-DNA *** age of ANA antibodies and dsDNA antibodies positive patients ranged from 1 year old to 98 years old and 2 years old to 95 years old *** the second(autoimmunity-free)control group,a total of 468 samples were tested for ANA antibodies and 9(2%)were found ***

关键词： ANA Anti ds-DNA Autoimmunity SLE Immune fluorescence

Why and how to use the SeqCode

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mLife 2024年第1期3卷 1-13页

作者： Wiliam B.Whitman Maria Chuvochina Brian P.Hedlund Konstantinos T.Konstantinidis Marike Palmer Luis M.Rodriguez-R lain Sutcliffe Fengping Wang Deparment of Microbioogy University of GeorgiaAthensGeorgiaUAA Schoolof Chemistry and Molecular biosciences Australian CentreforEogenomicsThe Universty of QueenslandSt LuciaAustralia University of Nevada Las Vegas Las VegasNevadaUSA Schol of Civil and Environmental Engineering and School of Biological SciencesGeorgia Institute of TechnologyAtlantaGeorgiaUSA department of Microbiology University of ManitobaWinnipegManitobaCanada School of Life sciences University of Nevada Las VegasLas VegasNevadaUSA department of Microbiology and Digital Science Center(DiSC) University of InnsbruckInnsbruckAustria Faculty of Health&Life sciences Northumbria UniversityNewcastle upon TyneUK School of Oceanography International Center for Deep Life InvestigationShanghai Jiao Tong UniversityShanghaiChina

The SeqCode,formally called the Code of Nomenclature of Prokaryotes Described from Sequence Data,is a new code of nomenclature in which genome sequences are the nomenclatural types for the names of prokaryotic *** similar to the International Code of Nomenclature of Prokaryotes(ICNP)in structure and rules of priority,it does not require the deposition of type strains in international culture ***,it allows for the formation of permanent names for uncultured prokaryotes whose nearly complete genome sequences have been obtained directly from environmental DNA as well as other prokaryotes that cannot be deposited in culture *** the diversity of uncultured prokaryotes greatly exceeds that of readily culturable prokaryotes,the SeqCode is the only code suitable for naming the majority of prokaryotic *** start date of the SeqCode was January 1,2022,and the online Registry(https://***)was created to ensure valid publication of *** SeqCode recognizes all names validly published under the ICNP before *** that date,names validly published under the SeqCode compete with ICNP names for *** a result,species can have only one name,either from the SeqCode or ICNP,enabling effective communication and the creation of unified taxonomies of uncultured and cultured *** SeqCode is administered by the SeqCode Committee,which is comprised of the SeqCode Community and elected administrative *** with an interest in the systematics of prokaryotes is encouraged to join the SeqCode Community and participate in the development of this resource.

关键词： genome sequences metagenome-assembled genomes nomenclature SeqCode