Lactic acid bacteria and the fermentation environment interact to form an intertwined system.Lactic acid bacteria are constantly evolving to adapt to different fermentation environments,causing changes in their physio...Lactic acid bacteria and the fermentation environment interact to form an intertwined system.Lactic acid bacteria are constantly evolving to adapt to different fermentation environments,causing changes in their physiological processes.To achieve a targeted improvement of their adaptability to various environments,a detail analysis of their evolutionary physiological processes is required.While several studies have been carried out in the past by using single-omics techniques to investigate their response to environmental stress,most researchers are now using a multi-omics approach to explore more detail in the biological regulatory networks and molecular mechanisms of lactic acid bacteria in response to environmental stress,thereby overcoming the limitations of single-omics analysis.In this review,we describe the various single-omics approaches that have been used to study environmental stress in lactic acid bacteria,present the advantages of various multi-omics combined analysis approaches,and discuss the potential and practicality of applying emerging single-cell transcriptomics and single-cell metabolomics techniques to the molecular mechanism study of microbes response to environmental stress.Multi-omics approaches enable the accurate identification of complex microbial physiological processes in different environments,allow people to comprehensively reveal the molecular mechanisms of microbes response to stress from different perspectives.Single-cell omics techniques,analyze the targeted regulation of microbial functions in a multi-dimensional space,provides a new perspective on understanding microbes responses environment stress.展开更多
Spatial transcriptomics is an organizational study done on tissue sections that preserves the spatial information of the sample.Spatial transcriptomics aims to combine spatial information with gene expression data to ...Spatial transcriptomics is an organizational study done on tissue sections that preserves the spatial information of the sample.Spatial transcriptomics aims to combine spatial information with gene expression data to quantify the mRNA expression of a large number of genes in the spatial context of tissues and cells.As a paradigm shift in biological research,spatial transcriptomics can provide both spatial location information and transcriptome-level cellular gene expression data,elucidating the interactions between cells and the microenvironment.From the understanding of the entire functional life cycle of RNA to the characterization of molecular mechanisms to the mapping of gene expression in various tissue regions,by choosing the appropriate spatial transcriptome technology,researchers can achieve a deeper exploration of biological developmental processes,disease pathogenesis,etc.In recent years,the field of spatial transcriptomics has ushered in several challenges along with its rapid development,such as the dependence on sample types,the resolution of visualized genes,the difficulty of commercialization,and the ability to obtain detailed single-cell information.In this paper,we summarize and review the four major categories of spatial transcriptome technologies and compare and analyze the technical advantages and major challenges of multiple research strategies to assist current experimental design and research analysis.Finally,the importance of spatial transcriptomics in the integration of multi-omics analysis and disease modeling as well as the future development prospects are summarized and outlined.展开更多
Although there has been a notable decrease in cancer mortality rates for many common cancers over the last decades,there remains a concerning lack of progress in understanding and treating rare tumors[1].Rare tumors a...Although there has been a notable decrease in cancer mortality rates for many common cancers over the last decades,there remains a concerning lack of progress in understanding and treating rare tumors[1].Rare tumors are types of tumors that are rare in clinical practice,which are the subclass of rare diseases.The classification of rare tumors varies internationally,with the US Food and Drug Administration and National Cancer Institute defining them as tumors with an incidence rate of less than 15 per 100,000 individuals annually,while the European Medicines Agency set the threshold at 6 per 100,000.According to the results from the National Cancer Center PLATFORM study in China,rare tumors are defined as an annual incidence rate of 2.5/100,000 or less.Although the incidence of each rare tumor is low,the total number of rare tumors is not low.The total number of rare tumor incidence in China is about 560,000 per year,accounting for 14.2%of all cancer patients[2].More than half of the rare tumors lack clinical treatment guidelines,or there is no standard treatment in clinical practice,suggesting there is a huge unmet medical need for effective treatments for rare tumors.展开更多
The rapid development of bioinformatics has provided novel approaches and methods for exploring the mechanisms of disease treatment via Chinese herbal medicines.Compound Chinese herbal medicines formulas have complex ...The rapid development of bioinformatics has provided novel approaches and methods for exploring the mechanisms of disease treatment via Chinese herbal medicines.Compound Chinese herbal medicines formulas have complex compositions and are characterized by their multiple constituents and diverse array of biological targets.Therefore,the mechanisms of action of most compound Chinese herbal medicines formulas cannot be adequately explained using a single pathway.Omics technologies describe high-throughput-based analytical and detection techniques,which include transcriptomics,proteomics,and metabolomics and provide multilayer parameter information that can be integrated to characterize the overall relationships involved in the therapeutic effects of Chinese herbal medicines formulas.Through their combination with network biology and drug effect networks,omics technologies also enable investigations into the mechanisms of disease treatment in traditional Chinese medicine.The integration of multiple omics technologies is in line with the concept of holism in traditional Chinese medicine and provides an approach for combining modern science and technology with traditional Chinese medicine theories.In recent years,omics technologies have been widely used to elucidate the mechanisms of action of Chinese herbal medicines.The latest studies employing multi-omics integration for investigating the mechanisms of action of Chinese herbal medicines interventions in metabolic diseases have devoted greater attention to in-depth explorations of disease pathogenesis.This paper provides a review of the following multi-omics technologies,which are used in research on the treatment of common metabolic diseases(e.g.,type-2 diabetes mellitus,nonalcoholic fatty liver disease):network pharmacology combined with metabolomics,16S rRNA sequencing combined with transcriptomics,16S rRNA sequencing combined with metabolomics,and 16S rRNA sequencing combined with network pharmacology and metabolomics.展开更多
Scrub typhus is a neglected disease and one of the most serious health problems in the Asia-Pacific region.The disease is caused by an obligate intracellular bacteria Orientia tsutsugamushi,which is transmitted by chi...Scrub typhus is a neglected disease and one of the most serious health problems in the Asia-Pacific region.The disease is caused by an obligate intracellular bacteria Orientia tsutsugamushi,which is transmitted by chigger bites or larval mite bites.Scrub typhus is a threat to billions of people worldwide causing different health complications and acute encephalitis in infants and growing children.The disease causes multiple organ failure and mortality rates may reach up to 70%due to a lack of appropriate healthcare.Currently available genome and proteome databases,and bioinformatics methods are valuable tools to develop novel therapeutics to curb the pathogen.This review discusses the state-of-the-art of information about Orientia tsutsugamushi-mediated scrub typhus and delineates the role of omics technologies to develop drugs against the pathogen.The role of proteome-wide in silico approaches for the identification of therapeutic targets is also highlighted.展开更多
The poultry industry is continuously facing substantial and different challenges such as the increasing cost of feed ingredients, the European Union’s ban of antibiotic as growth promoters, the antimicrobial resistan...The poultry industry is continuously facing substantial and different challenges such as the increasing cost of feed ingredients, the European Union’s ban of antibiotic as growth promoters, the antimicrobial resistance and the high incidence of muscle myopathies and breast meat abnormalities. In the last decade, there has been an extraordinary development of many genomic techniques able to describe global variation of genes, proteins and metabolites expression level. Proper application of these cutting-edge omics technologies(mainly transcriptomics, proteomics and metabolomics) paves the possibility to understand much useful information about the biological processes and pathways behind different complex traits of chickens. The current review aimed to highlight some important knowledge achieved through the application of omics technologies and proteo-genomics data in the field of feed efficiency, nutrition, meat quality and disease resistance in broiler chickens.展开更多
Fruit quality is the main factor determining market competitiveness;it represents the combination of fruit flavor,color,size,and the contents of aromatic and bioactive substances.Research on the genetic basis of fruit...Fruit quality is the main factor determining market competitiveness;it represents the combination of fruit flavor,color,size,and the contents of aromatic and bioactive substances.Research on the genetic basis of fruit quality can provide new information about fruit biology,promote genomic-assisted breeding,and provide technological support for the regulation of fruit quality via habitat selection and/or the control of environmental conditions.High-throughput sequencing is a powerful research method for studying fruit quality traits,and reference genome sequences for many important fruit crops have provided vast amounts of genomic data.To study fruit quality,it is important to select appropriate omics strategies and to analyze omics data meaningfully.Here,we summarize genomic mechanisms of fruit quality formation:gene duplication,transposable element insertion,structural variations and genome methylation in functional genes.We review the genomic,transcriptomic,and metabolomic strategies that have been used to study the genetic basis of fruit quality traits.We also describe some of the genes associated with fruit traits;these genes are a valuable resource for genomics-assisted breeding and are useful models for deciphering the mechanisms of agronomic traits,such as fruit color,size,hardness,aroma components,sugar and acid content.Finally,to maximize the application of omics information,we propose some further directions for research using omics strategies.展开更多
The recently developed technologies that allow the analysis of each single omics have provided an unbiased insight into ongoing disease processes.However,it remains challenging to specify the study design for the subs...The recently developed technologies that allow the analysis of each single omics have provided an unbiased insight into ongoing disease processes.However,it remains challenging to specify the study design for the subsequent integration strategies that can associate sepsis pathophysiology and clinical outcomes.Here,we conducted a time-dependent multi-omics integration(TDMI)in a sepsis-associated liver dysfunction(SALD)model.We successfully deduced the relation of the Toll-like receptor 4(TLR4)pathway with SALD.Although TLR4 is a critical factor in sepsis progression,it is not specified in single-omics analyses but only in the TDMI analysis.This finding indicates that the TDMI-based approach is more advantageous than single-omics analyses in terms of exploring the underlying pathophysiological mechanism of SALD.Furthermore,TDMI-based approach can be an ideal paradigm for insightful biological interpretations of multi-omics datasets that will potentially reveal novel insights into basic biology,health,and diseases,thus allowing the identification of promising candidates for therapeutic strategies.展开更多
In recent years,the concept of“precision microbiome”has received a lot of attention from researchers.It involves the precise analysis and typing of microbiota in specific hosts(e.g.,humans or animals)using advanced ...In recent years,the concept of“precision microbiome”has received a lot of attention from researchers.It involves the precise analysis and typing of microbiota in specific hosts(e.g.,humans or animals)using advanced tools like high-throughput sequencing,genomics,and artificial intelligence(AI).These tools help explore the complex interactions between microbiota and hosts to provide more precise and personalized treatment strategies[1,2].With the maturation of omics technologies and data analysis techniques,the essential role of gut microbiota in immune system maturation,barrier function maintenance,and metabolic regulation has become increasingly recognized[3].However,the“hodgepodge”approach of traditional fecal microbiota transplantation(FMT)cannot be appropriately controlled in clinical applications.This challenge has spurred the emergence of targeted interventions focused on specific functional core probiotics.Unlike traditional FMT,this approach aims to precisely identify and target microbial functional genes and metabolic pathways,selecting core probiotics for application,to improve host health and prevent or manage diseases[4].This article reviews the advantages and limitations of traditional FMT and core probiotic targeted therapy while exploring the future directions of precision microbiome research.展开更多
Microorganisms have been the main sources for the production of chemicals.Production of chemicals requires the development of low-cost and higher-yield processes.Towards this goal,microbial strains with higher levels ...Microorganisms have been the main sources for the production of chemicals.Production of chemicals requires the development of low-cost and higher-yield processes.Towards this goal,microbial strains with higher levels of production should be first considered.Metabolic engineering has been used extensively over the past two to three decades to increase production of these chemicals.Advances in omics technology and computational simulation are allowing us to perform metabolic engineering at the systems level.By combining the results of omics analyses and computational simulation,systems biology allows us to understand cellular physiology and characteristics,which can subsequently be used for designing strategies.Here,we review the current status of metabolic engineering based on systems biology for chemical production and discuss future prospects.展开更多
Traditional medicine (TM) plays an inevitable role in drug discovery and development. Most of the therapeutically useful molecules used in the present day are inspired from TM. Herbal drugs are the oldest forms of med...Traditional medicine (TM) plays an inevitable role in drug discovery and development. Most of the therapeutically useful molecules used in the present day are inspired from TM. Herbal drugs are the oldest forms of medicines used for the treatment of various ailments and the TM of every country has a long history of their usage. To develop more data on their quality, safety, and efficacy, so also to improve the consumer’s need of modern days several thrust areas of research are to be focused on the development of TM. Based on the above concept, a paradigm shift is required for the revitalization of TM. These facts along with the modern scientific approaches, molecular tools, and strategies make it necessary for TM to be revitalized. Confluencing several strategies with the technological and scientific developments including pharmacogenomics, nutrigenomics, system biology, and related approaches, the scientific potential of TM can be explored further with international coordination and collaborations.展开更多
Long noncoding RNAs(lncRNAs)are emerging as pivotal regulators in gene expression networks,charac-terized by their structural flexibility and functional versatility.In plants,lncRNAs have gained increasing attention d...Long noncoding RNAs(lncRNAs)are emerging as pivotal regulators in gene expression networks,charac-terized by their structural flexibility and functional versatility.In plants,lncRNAs have gained increasing attention due to accumulating evidence of their roles in modulating developmental plasticity and agro-nomic traits.In this review,we focus on the origin,classification,and mechanisms of action of plant lncRNAs,with a particular emphasis on their involvement in developmental processes.We also compre-hensively analyze the relationship between plant lncRNAs and their responses to environmental stimuli,discussing how environmental cues influence their expressions and regulatory functions.We then highlight the importance of the advanced technologies driving their functional exploration.Finally,we discuss recent discoveries of specific long noncoding transcripts that encode functional small peptides,revealing an additional layer of regulatory complexity to these transcripts.Overall,this review discuss the fascinating relationship between the dynamic transcription of lncRNAs and plant developmental plasticity,as well as environmental responses,and emphasizes the need for further research to uncover the underlying mo-lecular mechanisms and exploit the potential of noncoding transcripts for RNA-based strategies in crop improvementandmolecularbreeding.展开更多
基金supported by the National Natural Science Foundation of China(32160578)the Ningxia Hui Autonomous Region Key Research and Develoment Program(2023BCF01027).
文摘Lactic acid bacteria and the fermentation environment interact to form an intertwined system.Lactic acid bacteria are constantly evolving to adapt to different fermentation environments,causing changes in their physiological processes.To achieve a targeted improvement of their adaptability to various environments,a detail analysis of their evolutionary physiological processes is required.While several studies have been carried out in the past by using single-omics techniques to investigate their response to environmental stress,most researchers are now using a multi-omics approach to explore more detail in the biological regulatory networks and molecular mechanisms of lactic acid bacteria in response to environmental stress,thereby overcoming the limitations of single-omics analysis.In this review,we describe the various single-omics approaches that have been used to study environmental stress in lactic acid bacteria,present the advantages of various multi-omics combined analysis approaches,and discuss the potential and practicality of applying emerging single-cell transcriptomics and single-cell metabolomics techniques to the molecular mechanism study of microbes response to environmental stress.Multi-omics approaches enable the accurate identification of complex microbial physiological processes in different environments,allow people to comprehensively reveal the molecular mechanisms of microbes response to stress from different perspectives.Single-cell omics techniques,analyze the targeted regulation of microbial functions in a multi-dimensional space,provides a new perspective on understanding microbes responses environment stress.
基金supported by the National Natural Science Foundation of China(Grant No.22275071)
文摘Spatial transcriptomics is an organizational study done on tissue sections that preserves the spatial information of the sample.Spatial transcriptomics aims to combine spatial information with gene expression data to quantify the mRNA expression of a large number of genes in the spatial context of tissues and cells.As a paradigm shift in biological research,spatial transcriptomics can provide both spatial location information and transcriptome-level cellular gene expression data,elucidating the interactions between cells and the microenvironment.From the understanding of the entire functional life cycle of RNA to the characterization of molecular mechanisms to the mapping of gene expression in various tissue regions,by choosing the appropriate spatial transcriptome technology,researchers can achieve a deeper exploration of biological developmental processes,disease pathogenesis,etc.In recent years,the field of spatial transcriptomics has ushered in several challenges along with its rapid development,such as the dependence on sample types,the resolution of visualized genes,the difficulty of commercialization,and the ability to obtain detailed single-cell information.In this paper,we summarize and review the four major categories of spatial transcriptome technologies and compare and analyze the technical advantages and major challenges of multiple research strategies to assist current experimental design and research analysis.Finally,the importance of spatial transcriptomics in the integration of multi-omics analysis and disease modeling as well as the future development prospects are summarized and outlined.
基金supported by the grant:The National Key Research and Development Program of China(Grant No.2023YFC2508500)Beijing Municipal Health Commission(Beijing Demonstration Research Ward BCRW20200303)+1 种基金National Natural Science Foundation of China(82272951,82272953)Chinese Academy of Medical Sciences(2022-I2M-C&T-B-070).
文摘Although there has been a notable decrease in cancer mortality rates for many common cancers over the last decades,there remains a concerning lack of progress in understanding and treating rare tumors[1].Rare tumors are types of tumors that are rare in clinical practice,which are the subclass of rare diseases.The classification of rare tumors varies internationally,with the US Food and Drug Administration and National Cancer Institute defining them as tumors with an incidence rate of less than 15 per 100,000 individuals annually,while the European Medicines Agency set the threshold at 6 per 100,000.According to the results from the National Cancer Center PLATFORM study in China,rare tumors are defined as an annual incidence rate of 2.5/100,000 or less.Although the incidence of each rare tumor is low,the total number of rare tumors is not low.The total number of rare tumor incidence in China is about 560,000 per year,accounting for 14.2%of all cancer patients[2].More than half of the rare tumors lack clinical treatment guidelines,or there is no standard treatment in clinical practice,suggesting there is a huge unmet medical need for effective treatments for rare tumors.
基金supported by the Young Scientists Fund of the National Natural Science Foundation of China(Grant No.82104802)the Scientific Research Program of the Hebei Province Administration of Traditional Chinese Medicine(Grant No.2021311)+1 种基金the Scientific Research Program of the Jiangsu Province Administration of Traditional Chinese Medicine(Grant No.YB2020065)the Yunnan Province major Science and Technology Special Project(Biological Medicine)(Grant No.2019ZF005).
文摘The rapid development of bioinformatics has provided novel approaches and methods for exploring the mechanisms of disease treatment via Chinese herbal medicines.Compound Chinese herbal medicines formulas have complex compositions and are characterized by their multiple constituents and diverse array of biological targets.Therefore,the mechanisms of action of most compound Chinese herbal medicines formulas cannot be adequately explained using a single pathway.Omics technologies describe high-throughput-based analytical and detection techniques,which include transcriptomics,proteomics,and metabolomics and provide multilayer parameter information that can be integrated to characterize the overall relationships involved in the therapeutic effects of Chinese herbal medicines formulas.Through their combination with network biology and drug effect networks,omics technologies also enable investigations into the mechanisms of disease treatment in traditional Chinese medicine.The integration of multiple omics technologies is in line with the concept of holism in traditional Chinese medicine and provides an approach for combining modern science and technology with traditional Chinese medicine theories.In recent years,omics technologies have been widely used to elucidate the mechanisms of action of Chinese herbal medicines.The latest studies employing multi-omics integration for investigating the mechanisms of action of Chinese herbal medicines interventions in metabolic diseases have devoted greater attention to in-depth explorations of disease pathogenesis.This paper provides a review of the following multi-omics technologies,which are used in research on the treatment of common metabolic diseases(e.g.,type-2 diabetes mellitus,nonalcoholic fatty liver disease):network pharmacology combined with metabolomics,16S rRNA sequencing combined with transcriptomics,16S rRNA sequencing combined with metabolomics,and 16S rRNA sequencing combined with network pharmacology and metabolomics.
基金Department of Health Research,Government of India,New Delhi,India(Grant number:YSS/2020/000116/PRCYSS)。
文摘Scrub typhus is a neglected disease and one of the most serious health problems in the Asia-Pacific region.The disease is caused by an obligate intracellular bacteria Orientia tsutsugamushi,which is transmitted by chigger bites or larval mite bites.Scrub typhus is a threat to billions of people worldwide causing different health complications and acute encephalitis in infants and growing children.The disease causes multiple organ failure and mortality rates may reach up to 70%due to a lack of appropriate healthcare.Currently available genome and proteome databases,and bioinformatics methods are valuable tools to develop novel therapeutics to curb the pathogen.This review discusses the state-of-the-art of information about Orientia tsutsugamushi-mediated scrub typhus and delineates the role of omics technologies to develop drugs against the pathogen.The role of proteome-wide in silico approaches for the identification of therapeutic targets is also highlighted.
文摘The poultry industry is continuously facing substantial and different challenges such as the increasing cost of feed ingredients, the European Union’s ban of antibiotic as growth promoters, the antimicrobial resistance and the high incidence of muscle myopathies and breast meat abnormalities. In the last decade, there has been an extraordinary development of many genomic techniques able to describe global variation of genes, proteins and metabolites expression level. Proper application of these cutting-edge omics technologies(mainly transcriptomics, proteomics and metabolomics) paves the possibility to understand much useful information about the biological processes and pathways behind different complex traits of chickens. The current review aimed to highlight some important knowledge achieved through the application of omics technologies and proteo-genomics data in the field of feed efficiency, nutrition, meat quality and disease resistance in broiler chickens.
基金This work was supported by the National Key Research and Development Program of China(Grant No.2018YFD1000200)the Chinese National Natural Science Foundation(Grant No.31800573)+1 种基金the China Postdoctoral Science Foundation(Grant No.2019M662416)We thank Jennifer Smith,PhD,from Liwen Bianji,Edanz Group China(www.liwenbianji.cn/ac),for editing the English text of a draft of this manuscript.
文摘Fruit quality is the main factor determining market competitiveness;it represents the combination of fruit flavor,color,size,and the contents of aromatic and bioactive substances.Research on the genetic basis of fruit quality can provide new information about fruit biology,promote genomic-assisted breeding,and provide technological support for the regulation of fruit quality via habitat selection and/or the control of environmental conditions.High-throughput sequencing is a powerful research method for studying fruit quality traits,and reference genome sequences for many important fruit crops have provided vast amounts of genomic data.To study fruit quality,it is important to select appropriate omics strategies and to analyze omics data meaningfully.Here,we summarize genomic mechanisms of fruit quality formation:gene duplication,transposable element insertion,structural variations and genome methylation in functional genes.We review the genomic,transcriptomic,and metabolomic strategies that have been used to study the genetic basis of fruit quality traits.We also describe some of the genes associated with fruit traits;these genes are a valuable resource for genomics-assisted breeding and are useful models for deciphering the mechanisms of agronomic traits,such as fruit color,size,hardness,aroma components,sugar and acid content.Finally,to maximize the application of omics information,we propose some further directions for research using omics strategies.
基金supported by the National Research Foundation of Korea funded by the Korean government[Ministry of Science and ICT(MSIT)](Grant Nos.2021R1A6A3A01086425 and 2022R1A4A1018900).
文摘The recently developed technologies that allow the analysis of each single omics have provided an unbiased insight into ongoing disease processes.However,it remains challenging to specify the study design for the subsequent integration strategies that can associate sepsis pathophysiology and clinical outcomes.Here,we conducted a time-dependent multi-omics integration(TDMI)in a sepsis-associated liver dysfunction(SALD)model.We successfully deduced the relation of the Toll-like receptor 4(TLR4)pathway with SALD.Although TLR4 is a critical factor in sepsis progression,it is not specified in single-omics analyses but only in the TDMI analysis.This finding indicates that the TDMI-based approach is more advantageous than single-omics analyses in terms of exploring the underlying pathophysiological mechanism of SALD.Furthermore,TDMI-based approach can be an ideal paradigm for insightful biological interpretations of multi-omics datasets that will potentially reveal novel insights into basic biology,health,and diseases,thus allowing the identification of promising candidates for therapeutic strategies.
基金supported by the National Natural Science Foundation of China(grant 82300345)National High-Level Hospital Clinical Research Funding(2023-GSP-QN-23,China)。
文摘In recent years,the concept of“precision microbiome”has received a lot of attention from researchers.It involves the precise analysis and typing of microbiota in specific hosts(e.g.,humans or animals)using advanced tools like high-throughput sequencing,genomics,and artificial intelligence(AI).These tools help explore the complex interactions between microbiota and hosts to provide more precise and personalized treatment strategies[1,2].With the maturation of omics technologies and data analysis techniques,the essential role of gut microbiota in immune system maturation,barrier function maintenance,and metabolic regulation has become increasingly recognized[3].However,the“hodgepodge”approach of traditional fecal microbiota transplantation(FMT)cannot be appropriately controlled in clinical applications.This challenge has spurred the emergence of targeted interventions focused on specific functional core probiotics.Unlike traditional FMT,this approach aims to precisely identify and target microbial functional genes and metabolic pathways,selecting core probiotics for application,to improve host health and prevent or manage diseases[4].This article reviews the advantages and limitations of traditional FMT and core probiotic targeted therapy while exploring the future directions of precision microbiome research.
基金the National Natural Science Foundation of China(Grant No.30770066,200876181,and 20831006)Natural Science Foundation of Guangdong Province(No.07003631)the Project of Science and Technology of Guangdong Province(No.2007A010900001)for their financial support.
文摘Microorganisms have been the main sources for the production of chemicals.Production of chemicals requires the development of low-cost and higher-yield processes.Towards this goal,microbial strains with higher levels of production should be first considered.Metabolic engineering has been used extensively over the past two to three decades to increase production of these chemicals.Advances in omics technology and computational simulation are allowing us to perform metabolic engineering at the systems level.By combining the results of omics analyses and computational simulation,systems biology allows us to understand cellular physiology and characteristics,which can subsequently be used for designing strategies.Here,we review the current status of metabolic engineering based on systems biology for chemical production and discuss future prospects.
基金the All India Council of Technical Education (AICTE), New Delhi for providing financial support through MODROB (F.No-8024/RID/ BOR/MOD-74/2008-09)RPS project grants (F.No-8023/BOR/RID/RPS-204/2008-09)
文摘Traditional medicine (TM) plays an inevitable role in drug discovery and development. Most of the therapeutically useful molecules used in the present day are inspired from TM. Herbal drugs are the oldest forms of medicines used for the treatment of various ailments and the TM of every country has a long history of their usage. To develop more data on their quality, safety, and efficacy, so also to improve the consumer’s need of modern days several thrust areas of research are to be focused on the development of TM. Based on the above concept, a paradigm shift is required for the revitalization of TM. These facts along with the modern scientific approaches, molecular tools, and strategies make it necessary for TM to be revitalized. Confluencing several strategies with the technological and scientific developments including pharmacogenomics, nutrigenomics, system biology, and related approaches, the scientific potential of TM can be explored further with international coordination and collaborations.
基金supported by the National Natural Science Foundation of China(Nos.U24A20386 to Y.-Q.C.and 32470605 to D.W.)the Jiangxi Province Outstanding Youth Fund Project(20242BAB23062 to D.W.)+3 种基金the National Ten Thousand Talent Program(2022WRQB007 to Y.-C.Z.)Guangdong Province(2022B1515020018 to Y.-C.Z.)Agencia I+D+i,ICGEB,to F.A.and the AXA Research Fund(AXA Chair,2025-2029 to F.A.).
文摘Long noncoding RNAs(lncRNAs)are emerging as pivotal regulators in gene expression networks,charac-terized by their structural flexibility and functional versatility.In plants,lncRNAs have gained increasing attention due to accumulating evidence of their roles in modulating developmental plasticity and agro-nomic traits.In this review,we focus on the origin,classification,and mechanisms of action of plant lncRNAs,with a particular emphasis on their involvement in developmental processes.We also compre-hensively analyze the relationship between plant lncRNAs and their responses to environmental stimuli,discussing how environmental cues influence their expressions and regulatory functions.We then highlight the importance of the advanced technologies driving their functional exploration.Finally,we discuss recent discoveries of specific long noncoding transcripts that encode functional small peptides,revealing an additional layer of regulatory complexity to these transcripts.Overall,this review discuss the fascinating relationship between the dynamic transcription of lncRNAs and plant developmental plasticity,as well as environmental responses,and emphasizes the need for further research to uncover the underlying mo-lecular mechanisms and exploit the potential of noncoding transcripts for RNA-based strategies in crop improvementandmolecularbreeding.
