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pssRNAit-a web server for designing effective and specific plant siRNAs with genome-wide off-target assessment
Bioinformatics plant RNAi siRNA efficacy off-target gene silencing VIGS syntasiRNA
2024/1/12
We report an advanced web server named pssRNAit (plant specific small non-coding RNAi tool) that can be used to design a pool of small interfering RNAs (siRNAs) for highly effective, specific, and non...
Unraveling the 3D Genome Architecture in Plants: Present and Future
3D genomic methods plant 3D genome dynamic chromatin organization liquid-liquid phase separation RNA-chromatin interaction
2023/12/19
The eukaryotic genome has a hierarchical three-dimensional organization with functional implications in DNA replication, DNA repair, and transcriptional regulation. Over the past decade, scientists ha...
Genome-wide analysis of the AREB/ABF gene lineage in land plants and functional analysis of TaABF3 in Arabidopsis
ABFs Land plants Phylogenetic relationship Expression analysis TaABFs Drought stress
2023/12/15
Previous studies have shown that ABFs (abscisic acid-responsive transcription factors) are important ABA-signaling components that participate in abiotic stress response. However, little is known abou...
Genome-wide analysis and expression profile of the bZIP gene family in poplar
Poplar bZIP gene family Tissue-differential expression Salt stress Co-expression analysis
2023/12/8
The bZIP gene family, which is widely present in plants, participates in varied biological processes including growth and development and stress responses. How do the genes regulate such biological pr...
MYB transcription factor family in sweet cherry (Prunus avium L.): genome-wide investigation, evolution, structure, characterization and expression patterns
MYB transcription factors PavMYB genes Phylogenetic analysis Expression pattern Dormancy
2023/11/30
MYB Transcription factors (TFs) are most imperative and largest gene family in plants, which participate in development, metabolism, defense, differentiation and stress response. The MYB TFs has been ...
Functional divergence of Populus MYB158 and MYB189 gene pair created by whole genome duplication
duplicate gene functional divergence MYB transcription factor regulatory networks secondary cell wall biosynthesis whole genome duplication
2023/11/28
Whole genome duplication (WGD) provides new genetic material for genome evolution. After a WGD event, some duplicates are lost, while other duplicates still persist and evolve diverse functions. A par...
Targeted introduction of heritable point mutations into the plant mitochondrial genome
plant mitochondrial genome heritable ALEN-GDM mtDNA genome editing CRISPR-Cas
2023/11/28
The development of technologies for the genetic manipulation of mitochondrial genomes remains a major challenge. Here we report a method for the targeted introduction of mutations into plant mitochond...
The genome of homosporous maidenhair fern sheds light on the euphyllophyte evolution and defences
Adiantum capillus-veneris evolution of seed plants origin of euphyllophytes defences
2023/11/16
Euphyllophytes encompass almost all extant plants, including two sister clades, ferns and seed plants. Decoding genomes of ferns is the key to deep insight into the origin of euphyllophytes and the ev...
卵母细胞和早期胚胎异常是造成女性不孕及试管婴儿反复失败的重要原因。已有研究证实，遗传因素在卵母细胞和早期胚胎异常中发挥重要作用。既往研究主要集中于大家系及近亲家系患者，且致病突变主要遗传自父母，展现为显性遗传或隐性遗传模式。然而，新发突变（De novo mutations，DNMs）在卵母细胞和早期胚胎异常中发挥怎样的作用尚不清楚。
2023年03月27日，上海市免疫学研究所陈磊研究员团队在Genome Research上发表了题为“Simultaneous profiling of host expression and microbial abundance by spatial meta-transcriptome sequencing”的研究论文。该研究首次开发了空间宏转录组测序及一体化的生物信息分析技术SMT(Spa...
Genome-wide association mapping and gene expression analysis identify OsCPS1 as a new candidate gene controlling early seedling length in rice
rice shoot length genome-wide association study OsCPS1 selection
2023/4/21
High seedling vigor can improve the ability to compete against weeds and flooding at the seedling stage and is essential for the direct seeding of rice. Early shoot length is an important performance ...
Genome-wide association study of pericarp color in rice using different germplasm and phenotyping methods reveals different genetic architectures
rice pericarp color quantitative trait locus candidate gene genome-wide association study
2023/4/21
Pericarp colors (PC) in rice are determined by the types and content of flavonoids in the pericarp. The flavonoid compounds have strong antioxidant activities and are beneficial to human health. Howev...
The asparagus genome sheds light on the origin and evolution of a young Y chromosome
雄性双倍体 芦笋 石刁柏 基因组测序
2023/3/31
该成果为江西省农业科学院牵头，与美国乔治亚大学和华大基因等联合，对雄性双倍体（YY）芦笋（石刁柏）进行全基因组测序，利用Illumina（二代）+PacBio（三代）+BioNano（基因组拼接系统）等多种技术手段组装，得到芦笋（石刁柏）基因组大小约为1.3Gb，有27,656个蛋白编码基因被预测。通过对石刁柏参考基因组的比较组学及实验分析发现，单独但相互关联的基因负责性别决定。性染色体在细胞遗传...
人类内源性逆转录病毒（Human endogenous retrovirus, HERV）是一类由远古逆转录病毒整合于生殖细胞基因组而形成的转座子元件，大约占人类基因组的8%。由于进化过程中产生的序列突变和宿主的表观遗传抑制，大多数HERV失去了正常的表达能力。而现阶段越来越多的研究发现，部分HERV的表达在人类生长发育中具有重要的生理功能。因此，系统阐明HERV的表达分布规律和调控机制，将为理解...
The XTH Gene Family in Schima superba: Genome-Wide Identification, Expression Profiles, and Functional Interaction Network Analysis
XTH Gene Family Genome-Wide Identification Schima superba
2023/6/2
Xyloglucan endotransglucosylase/hydrolase (XTH), belonging to glycoside hydrolase family 16, is one of the key enzymes in plant cell wall remodeling. Schima superba is an important timber and fireproo...