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| 1 | Hydrogen sulfide (H_(2)S) signaling in plant development and stress responses显示文摘Hydrogen sulfide(H_(2)S)was initially recognized as a toxic gas and its biological functions in mammalian cells have been gradually discovered during the past decades.In the latest decade,numerous studies have revealed that H_(2)S has versatile functions in plants as well.In this review,we summarize H_(2)Smediated sulfur metabolic pathways,as well as the progress in the recognition of its biological functions in plant growth and development,particularly its physiological functions in biotic and abiotic stress responses.Besides direct chemical reactions,nitric oxide(NO)and hydrogen peroxide(H_(2)O2)have complex relationships with H_(2)S in plant signaling,both of which mediate protein post-translational modification(PTM)to attack the cysteine residues.We also discuss recent progress in the research on the three types of PTMs and their biological functions in plants.Finally,we propose the relevant issues that need to be addressed in the future research. | Hai Liu Jicheng Wang Jianhao Liu Tong Liu Shaowu Xue | 2021 | aBIOTECH2021，2，1： | 10 |
| 2 | Precise gene replacement in plants through CRISPR/Cas genome editing technology:current status and future perspectives显示文摘CRISPR/Cas,as a simple,versatile,robust and cost-effective system for genome manipulation,has dominated the genome editing field over the past few years.The application of CRISPR/Cas in crop improvement is particularly important in the context of global climate change,as well as diverse agricultural,environmental and ecological challenges.Various CRISPR/Cas toolboxes have been developed and allow for targeted mutagenesis at specific genome loci,transcriptome regulation and epigenome editing,base editing,and precise targeted gene/allele replacement or tagging in plants.In particular,precise replacement of an existing allele with an elite allele in a commercial variety through homology-directed repair(HDR)is a holy grail in genome editing for crop improvement as it has been very difficult,laborious and time-consuming to introgress the elite alleles into commercial varieties without any linkage drag from parental lines within a few generations in crop breeding practice.However,it still remains very challenging in crop plants.This review intends to provide an informative summary of the latest development and breakthroughs in gene replacement using CRISPR/Cas technology,with a focus on achievements,potential mechanisms and future perspectives in plant biological science as well as crop improvement. | Shaoya Li Lanqin Xia | 2020 | aBIOTECH2020，1，1： | 5 |
| 3 | Technological breakthroughs in generating transgene-free and genetically stable CRISPR-edited plants显示文摘CRISPR/Cas9 gene-editing technologies have been very effective in editing target genes in all major crop plants and offer unprecedented potentials in crop improvement.A major challenge in using CRISPR gene-editing technology for agricultural applications is that the target gene-edited crop plants need to be transgene free to maintain trait stability and to gain regulatory approval for commercial production.In this article,we present various strategies for generating transgene-free and target geneedited crop plants.The CRISPR transgenes can be removed by genetic segregation if the crop plants are reproduced sexually.Marker-assisted tracking and eliminating transgenes greatly decrease the time and labor needed for identifying the ideal transgene-free plants.Transgenes can be programed to undergo self-elimination when CRISPR genes and suicide genes are sequentially activated,greatly accelerating the isolation of transgene-free and target gene-edited plants.Transgene-free plants can also be generated using approaches that are considered non-transgenic such as ribonucleoprotein transfection,transient expression of transgenes without DNA integration,and nano-biotechnology.Here,we discuss the advantages and disadvantages of the various strategies in generating transgene-free plants and provide guidance for adopting the best strategies in editing a crop plant. | Yubing He Yunde Zhao | 2020 | aBIOTECH2020，1，1： | 5 |
| 4 | General and specialized tyrosine metabolism pathways in plants显示文摘The tyrosine metabolism pathway serves as a starting point for the production of a variety of structurally diverse natural compounds in plants,such as tocopherols,plastoquinone,ubiquinone,betalains,salidroside,benzylisoquinoline alkaloids,and so on.Among these,tyrosine-derived metabolites,tocopherols,plastoquinone,and ubiquinone are essential to plant survival.In addition,this pathway provides us essential micronutrients(e.g.,vitamin E and ubiquinone)and medicine(e.g.,morphine,salidroside,and salvianolic acid B).However,our knowledge of the plant tyrosine metabolism pathway remains rudimentary,and genes encoding the pathway enzymes have not been fully defined.In this review,we summarize and discuss recent advances in the tyrosine metabolism pathway,key enzymes,and important tyrosine-derived metabolites in plants. | Jing-Jing Xu Xin Fang Chen-Yi Li Lei Yang Xiao-Ya Chen | 2020 | aBIOTECH2020，1，2： | 5 |
| 5 | Regulation of cell reprogramming by auxin during somatic embryogenesis显示文摘How somatic cells develop into a whole plant is a central question in plant developmental biology.This powerful ability of plant cells is recognized as their totipotency.Somatic embryogenesis is an excellent example and a good research system for studying plant cell totipotency.However,very little is known about the molecular basis of cell reprogramming from somatic cells to totipotent cells in this process.During somatic embryogenesis from immature zygotic embryos in Arabidopsis,exogenous auxin treatment is required for embryonic callus formation,but removal of exogenous auxin inducing endogenous auxin biosynthesis is essential for somatic embryo(SE)induction.Ectopic expression of specific transcription factor genes,such as 'LAFL' and BABY BOOM(BBM),can induce SEs without exogenous growth regulators.Somatic embryogenesis can also be triggered by stress,as well as by disruption of chromatin remodeling,including PRC2-mediated histone methylation,histone deacetylation,and PKL-related chromatin remodeling.It is evident that embryonic identity genes are required and endogenous auxin plays a central role for cell reprogramming during the induction of SEs.Thus,we focus on reviewing the regulation of cell reprogramming for somatic embryogenesis by auxin. | Li Ping Tang Xian Sheng Zhang Ying Hua Su | 2020 | aBIOTECH2020，1，3： | 4 |
| 6 | Plant geranylgeranyl diphosphate synthases: every (gene) family has a story显示文摘Plant isoprenoids(also known as terpenes or terpenoids)are a wide family of primary and secondary metabolites with multiple functions.In particular,most photosynthesis-related isoprenoids(including carotenoids and chlorophylls)as well as diterpenes and polyterpenes derive from geranylgeranyl diphosphate(GGPP)produced by GGPP synthase(GGPPS)enzymes in several cell compartments.Plant genomes typically harbor multiple copies of differentially expressed genes encoding GGPPS-like pro-teins.While sequence comparisons allow to identify potential GGPPS candidates,experimental evidence is required to ascertain their enzymatic activity and biologi cal function.Actually,functional analyses of the full set of potential GGPPS paralogs are only available for a handful of plant species.Here we review our current knowledge on the GGPPS families of the model plant Arabidopsis thaliana and the crop species rice(0ryza sativa),pepper(Capsicum annuum)and tomato(Solanum lycopersicum).The results indicate that a major determinant of the biological role of particular GGPPS paralogs is the expression profile of the corresponding genes even though specific interactions with other proteins(including GGPP-consuming enzymes)might also contribute to subfunctionalization.In some species,however,a single GGPPS isoforms appears to be responsible for the production of most if not all GGPP required for cell functions.Deciphering the mechanisms regulating GGPPS activity in particular cell compartments,tissues,organs and plant species will be very useful for future metabolic engineering approaches aimed to manipulate the accumulation of particular GGPP-derived products of interest without negatively impacting the levels of other isoprenoids required to sustain essential cell functions. | M.Victoria Barja Manuel Rodriguez-Concepcion | 2021 | aBIOTECH2021，2，3： | 4 |
| 7 | FERONIA cytoplasmic domain:node of varied signal outputs显示文摘The receptor-like kinase(RLK)FERONIA(FER),located on the plasma membrane,belongs to the Catharanthus roseus RLK1-like kinase family(CrRLK1L)and participates in widespread biological processes in plants in a context-dependent fashion.Genetic studies in Arabidopsis illustrated the versatile roles that FER plays in fertilization,vegetative growth,defense and stress responses,cell-wall homeostasis,as well as protein synthesis.These studies also helped to identify genes and signal pathways involved in FER signal transduction.Despite increasingly larger numbers of studies discussing how FER senses its ligand,Rapid alkalinization factor(RALF)peptides,and further regulates downstream factors,few have shown the mechanisms of how FER mediates the specific regulation of downstream signals in context of the phosphorylation of its cytoplasmic domain.As understanding this would help in better understanding the diversity and complexity of FER function,this paper aims to review the roles of FER in regulating different signal outputs from the view of the role of its cytoplasmic domain. | Jia Chen Sirui Zhu Zhenhua Ming Xuanming Liu Feng Yu | 2020 | aBIOTECH2020，1，2： | 4 |
| 8 | Molecular basis of heading date control in rice显示文摘Flowering time is of great significance for crop reproduction,yield,and regional adaptability,which is intricately regulated by various environmental cues and endogenous signals.Genetic approaches in Arabidopsis have revealed the elaborate underlying mechanisms of sensing the dynamic change of photoperiod via a coincidence between light signaling and circadian clock,the cellular time keeping system,to precisely control photoperiodic flowering time,and many other signaling pathways including internal hormones and external temperature cues.Extensive studies in rice(Oryza sativa.),one of the short-day plants(SDP),have uncovered the multiple major genetic components in regulating heading date,and revealed the underlying mechanisms for regulating heading date.Here we summarize the current progresses on the molecular basis for rice heading date control,especially focusing on the integration mechanism between photoperiod and circadian clock,and epigenetic regulation and heading procedures in response to abiotic stresses. | Hua Wei Xiling Wang Hang Xu Lei Wang | 2020 | aBIOTECH2020，1，4： | 3 |
| 9 | Integration of light and hormone signaling pathways in the regulation of plant shade avoidance syndrome显示文摘As sessile organisms,plants are unable to move or escape from their neighboring competitors under high-density planting conditions.Instead,they have evolved the ability to sense changes in light quantity and quality(such as a reduction in photoactive radiation and drop in red/far-red light ratios)and evoke a suite of adaptative responses(such as stem elongation,reduced branching,hyponastic leaf orientation,early flowering and accelerated senescence)collectively termed shade avoidance syndrome(SAS).Over the past few decades,much progress has been made in identifying the various photoreceptor systems and light signaling components implicated in regulating SAS,and in elucidating the underlying molecular mechanisms,based on extensive molecular genetic studies with the model dicotyledonous plant Arabidopsis thaliana.Moreover,an emerging synthesis of the field is that light signaling integrates with the signaling pathways of various phytohormones to coordinately regulate different aspects of SAS.In this review,we present a brief summary of the various cross-talks between light and hormone signaling in regulating SAS.We also present a perspective of manipulating SAS to tailor crop architecture for breeding high-density tolerant crop cultivars. | Yang Liu Feresheeh Jafari Haiyang Wang | 2021 | aBIOTECH2021，2，2： | 3 |
| 10 | Natural variation and artificial selection of photoperiodic flowering genes and their applications in crop adaptation显示文摘Flowering links vegetative growth and reproductive growth and involves the coordination of local environmental cues and plant genetic information.Appropriate timing of floral initiation and maturation in both wild and cultivated plants is important to their fitness and productivity in a given growth environment.The domestication of plants into crops,and later crop expansion and improvement,has often involved selection for early flowering.In this review,we analyze the basic rules for photoperiodic adaptation in several economically important and/or well-researched crop species.The ancestors of rice(Oryza sativa),maize(Zea mays),soybean(Glycine max),and tomato(Solanum lycopersicum)are short-day plants whose photosensitivity was reduced or lost during domestication and expansion to high-latitude areas.Wheat(Triticum aestivum)and barley(Hordeum vulgare)are long-day crops whose photosensitivity is influenced by both latitude and vernalization type.Here,we summarize recent studies about where these crops were domesticated,how they adapted to photoperiodic conditions as their growing area expanded from domestication locations to modern cultivating regions,and how allelic variants of photoperiodic flowering genes were selected during this process.A deeper understanding of photoperiodic flowering in each crop will enable better molecular design and breeding of high-yielding cultivars suited to particular local environments. | Xiaoya Lin Chao Fang Baohui Liu Fanjiang Kong | 2021 | aBIOTECH2021，2，2： | 3 |
| 11 | Recent advances in CRISPR/Cas9 and applications for wheat functional genomics and breeding显示文摘Common wheat(Triticum aestivum L.)is one of the three major food crops in the world;thus,wheat breeding programs are important for world food security.Characterizing the genes that control important agronomic traits and finding new ways to alter them are necessary to improve wheat breeding.Functional genomics and breeding in polyploid wheat has been greatly accelerated by the advent of several powerful tools,especially CRISPR/Cas9 genome editing technology,which allows multiplex genome engineering.Here,we describe the development of CRISPR/Cas9,which has revo-lutionized the field of genome editing.In addition,we emphasize technological breakthroughs(e.g.base editing and prime editing)based on CRISPR/Cas9.We also summarize recent applications and advances in the functional annotation and breeding of wheat,and we introduce the production of CRISPR-edited DNA-free wheat.Combined with other achievements,CRISPR and CRISPR-based genome editing will speed progress in wheat biology and promote sustainable agriculture. | Jun Li Yan Li Ligeng Ma | 2021 | aBIOTECH2021，2，4： | 3 |
| 12 | Molecular basis for optimizing sugar metabolism and transport during fruit development显示文摘Sugars are fundamental metabolites synthesized in leaves and further delivered to fruit in fruit crops.They not only provide'sweetness'as fruit quality traits,but also function as signaling molecules to modulate the responses of fruit to environmental stimuli.Therefore,the understanding to the molec-ular basis for sugar metabolism and transport is crucial for improving fruit quality and dissecting responses to abiotic/biotic factors.Here,we provide a review for mol ecular components involved in sugar metabolism and transport,crostalk with hormone signaling and the roles of sugars in responses to abiotic and biotic stresses.Moreover,we also envisage the strategies for optimizing sugar metabolism during fruit quality maintenance. | Tong Chen Zhanquan Zhang Boqiang Li Guozheng Qin Shiping Tian | 2021 | aBIOTECH2021，2，3： | 2 |
| 13 | Wheat speciation and adaptation:perspectives from reticulate evolution显示文摘Reticulate evolution through the interchanging of genetic components across organisms can impact significantly on the fitness and adaptation of species.Bread wheat(Triticum aestivum subsp.aestivum)is one of the most important crops in the world.Allopolyploid speci ation,frequent hybridization,extensive introgression,and occasional horizontal gene transfer(HGT)have been shaping a typical paradigm of reticulate evolution in bread wheat and its wild relatives,which is likely to have a sub-stantial influence on phenotypic traits and environmental adaptability of bread wheat.In this review,we outlined the evolutionary history of bread wheat and its wild relatives with a highlight on the interspecific hybridization events,demonstrating the reticulate relationship between species/sub-species in the genera Triticum and Aegilops.Furthermore,we discussed the genetic mechanisms and evolutionary significance underlying the introgression of bread wheat and its wild relatives.An in-depth understanding of the evolutionary process of Triticum species should be beneficial to future genetic study and breeding of bread wheat. | Xuebo Zhao Xiangdong Fu Changbin Yin Fei Lu | 2021 | aBIOTECH2021，2，4： | 2 |
| 14 | A LexA-based yeast two-hybrid system for studying light- switchable interactions of phytochromes with their interacting partners显示文摘Phytochromes are a family of photoreceptors in plants that perceive the red(R)and far-red(FR)components of their light environment.Phytochromes exist in vivo in two forms,the inactive Pr form and the active Pfr form,that are interconvertible by treatments with R or FR light.It is believed that phytochromes transduce light signals by interacting with their signaling partners.A GAL4-based lightswitchable yeast two-hybrid(Y2H)system was developed two decades ago and has been successfully employed in many studies to determine phytochrome interactions with their signaling components.However,several pairs of interactions between phytochromes and their interactors,such as the phyACOP1 and phyA-TZP interactions,were demonstrated by other assay systems but were not detected by this GAL4 Y2H system.Here,we report a modified LexA Y2H system,in which the LexA DNA-binding domain is fused to the C-terminus of a phytochrome protein.The conformational changes of phytochromes in response to R and FR light are achieved in yeast cells by exogenously supplying phycocyanobilin(PCB)extracted from Spirulina.The well-defined interaction pairs,including phyA-FHY1 and phyB-PIFs,are well reproducible in this system.Moreover,we show that our system is successful in detecting the phyA-COP1 and phyA-TZP interactions.Together,our study provides an alternative Y2H system that is highly sensitive and reproducible for detecting light-switchable interactions of phytochromes with their interacting partners. | Hong Li Xinyan Qin Pengyu Song Run Han Jigang Li | 2021 | aBIOTECH2021，2，2： | 2 |
| 15 | Recent advances in understanding of the epigenetic regulation of plant regeneration显示文摘Ever since the concept of'plant cell totipotency'was first proposed in the early twentieth century,plant regeneration has been a major focus of study.Regeneration-mediated organogenesis and genetic transformation are important topics in both basic research and modern agriculture.Recent studies in the model plant Arabidopsis thaliana and other species have expanded our understanding of the molecular regulation of plant regeneration.The hierarchy of transcriptional regulation driven by phytohormone signaling during regeneration is associated with changes in chromatin dynamics and DNA methylation.Here,we summarize how various aspects of epigenetic regulation,including histone modifications and variants,chromatin accessibility dynamics,DNA methylation,and microRNAs,modulate plant regeneration.As the mechanisms of epigenetic regulation are conserved in many plants,research in this field has potential applications in boosting crop breeding,especially if coupled with emerging single-cell omics technologies. | Xuemei Liu Kehui Zhu Jun Xiao | 2023 | aBIOTECH2023，4，1： | 2 |
| 16 | A novel CRISPR/Cas9 system for efficiently generating Cas9- free multiplex mutants in Arabidopsis显示文摘The CRISPR/Cas9 genome-editing system has emerged as a popular powerful tool for biological research.However,the process of selecting efficiently edited Cas9-free plants is usually laborious and time consuming.Here,we demonstrated P2A to be the most efficient self-cleaving peptide for fusing Cas9 and GFP in Arabidopsis and then used Cas9-P2A-GFP to develop a novel CRISPR/Cas9 system.Additionally,a pair of isocaudomer restriction enzymes were selected to conveniently assemble multiple sgRNAs.In this system,the GFP fluorescence intensity in T1 transgenic plants indicates the expression level of the Cas9 protein,which correlates well with the editing efficiency.Furthermore,Cas9-free plants can be easily selected by examining GFP fluorescence in T2 transgenic plants.The efficient knockout of BRI1,BZR1 and BES1 demonstrated the robustness of our new system.Thus,we designed a novel CRISPR/Cas9 system that can generate Cas9-free multiplex mutants efficiently in Arabidopsis and possibly in other plant species. | Jiajun Wang Haodong Chen | 2020 | aBIOTECH2020，1，1： | 2 |
| 17 | Fixation of hybrid vigor in rice:synthetic apomixis generated by genome editing显示文摘Apomixis is an asexual reproduction process in which clonal seeds are formed without meiosis and fertilization.Because of its potential in permanently preserving hybrid vigor,apomixis has attracted a great deal of interests from plant biologists and the seed industry.However,despite of decades of effort,introgression of apomixis traits from wild relatives into major crops has remained unsuccessful.Therefore,synthetic apomixis has been proposed as an alternative to fix hybrid vigor.In this article,I present the development of the MiMe(Mitosis instead of Meiosis),which turns meiosis into mitosis and leads to the production of clonal gametes.Apomixis-like clonal seeds are generated when MiMe plants are crossed to special genome elimination lines,which contain an altered centromere-specific histone 3(CENH3).Furthermore,induction of haploid plants from egg cells can be achieved by either egg cell-specific expression of BABY BOOM1(BBM1),or disruption of MATRILINEAL(MTL)using CRISPR/Cas9 gene-editing technology.Synthetic apomixis is established and clonal seeds are produced by simultaneous engineering MiMe with altering BBM1 expression or MTL disruption.Finally,I discuss how to further improve the apomixis strategy and its applications in crop breeding. | Kejian Wang | 2020 | aBIOTECH2020，1，1： | 2 |
| 18 | From gene editing to genome engineering: restructuring plant chromosomes via CRISPR/Cas显示文摘In the last years,tremendous progress has been achieved in the field of gene editing in plants.By the induction of single site-specific double-strand breaks(DSBs),the knockout of genes by non-homologous end joining has become routine in many plant species.Recently,the efficiency of inducing pre-planned mutations by homologous recombination has also been improved considerably.However,very little effort has been undertaken until now to achieve more complex changes in plant genomes by the simultaneous induction of several DSBs.Several reports have been published on the efficient induction of deletions.However,the induction of intrachromosomal inversions and interchromosomal recombination by the use of CRISPR/Cas has only recently been reported.In this review,we want to sum up these results and put them into context with regards to what is known about natural chromosome rearrangements in plants.Moreover,we review the recent progress in CRISPR/Cas-based mammalian chromosomal rearrangements,which might be inspiring for plant biologists.In the long run,the controlled restructuring of plant genomes should enable us to link or break linkage of traits at will,thus defining a new area of plant breeding. | Carla Schmidt Patrick Schindele Holger Puchta | 2020 | aBIOTECH2020，1，1： | 2 |
| 19 | bZIP17 regulates heat stress tolerance at reproductive stage in Arabidopsis显示文摘High temperature elicits a well-conserved response called the unfol ded protein response(UPR)to bring protein homeostasis in the endoplasmic reticulum(ER).Two key UPR regulators bZIP28 and bZIP60 have been shown to be essential for maintaining fertility under heat stress conditions in Arabidopsis,however,the function of transcriptional activator bZIP17,a paralog of bZIP28,in heat stress response at reproductive stage is not reported.Here we found that bzip17 mutant plants were sensitive to heat stress in terms of silique length and fertility comparing to that of wildtype(WT)Arabidopsis plants,and transcri ptomic analysis showed that 1380 genes were specifically up-regulated and 493 genes were specifically down-regulated by heat stress in the flowers of WT plants comparing to that in bzip17 mutant plants.These bZIP17-dependent up-regulated genes were enriched in responses to a biotic stresses such as water deprivation and salt stress.Further chromatin immuno-preci pitation coupled with high-throughput sequencing(ChIP-Seq)uncovered 1645 genes that were direct targets of bZIP17 in MYC-bZIP17 expressing seedlings subjected to heat stress.Among these 1645 genes,ERSE-II cis-element was enriched in the binding peaks of their promoters,and the up-regulation of 113 genes by heat stress in flowers was dependent on bZIP17.Our results revealed direct targets of bZIP17 in flowers during heat stress responses and demonstrated the important role of bZIP17 in maintai ning fertility upon heat stress in plants. | Juan Gao Mei-ing Wang Jing-Jing Wang Hai-Ping Lu Jian-Xiang Liu | 2022 | aBIOTECH2022，3，1： | 2 |
| 20 | Construction of homozygous diploid potato through maternal haploid induction显示文摘Reinventing the tetraploid potato into a seed-propagated,diploid,hybrid potato would significantly accelerate potato breeding.In this regard,the development of highly homozygous inbred lines is a prerequisite for breeding hybrid potatoes,but self-incompatibility and inbreeding depression present challenges for developing pure inbred lines.To resolve this impediment,we developed a doubled haploid(DH)technology,based on mutagenesis of the potato DOMAIN OF UNKNOWN FUNCTION 679 membrane protein(StDMP)gene.Here,we show that a deficiency in StDMP allows the generation of maternal haploids for generating diploid potato lines.An exercisable protocol,involving hybridization,fluorescent marker screening,molecular and flow cytometric identification,and doubling with colchicine generates nearly 100%homozygous diploid potato lines.This dmp-triggered haploid induction(HI)system greatly shortens the breeding process and offers a robust method for generating diploid potato inbred lines with high purity. | Jinzhe Zhang Jian Yin Jiayi Luo Die Tang Xijian Zhu Jie Wang Zhihong Liu Pei Wang Yu Zhong Chenxu Liu Canhui Li Shaojiang Chen Sanwen Huang | 2022 | aBIOTECH2022，3，3： | 2 |
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