A5039092489- Wheat and Barley Genetics and Pathology
- Protein Structure and Dynamics
- Plant Disease Resistance and Genetics
- Plant Reproductive Biology
- Plant Stress Responses and Tolerance
- Genetic Mapping and Diversity in Plants and Animals
- Plant Molecular Biology Research
- Chromosomal and Genetic Variations
- RNA Research and Splicing
- Cancer-related molecular mechanisms research
- Plant-Microbe Interactions and Immunity
- Endoplasmic Reticulum Stress and Disease
- Enzyme Structure and Function
- Viral Infectious Diseases and Gene Expression in Insects
- Bacterial Genetics and Biotechnology
- Genetics and Plant Breeding
- Plant and Fungal Interactions Research
- Insect symbiosis and bacterial influences
- DNA Repair Mechanisms
- Cryospheric studies and observations
- Climate change and permafrost
- RNA and protein synthesis mechanisms
- Plant Gene Expression Analysis
- Arctic and Antarctic ice dynamics
- Photosynthetic Processes and Mechanisms
Academy of Military Medical Sciences
2025
Northwest A&F University
2013-2024
Jiangsu University of Science and Technology
2013
Harvard University
2010
Boston University
2004-2007
Summary: Computational protein docking is a useful technique for gaining insights into interactions. We have developed an algorithm M-ZDOCK predicting the structure of cyclically symmetric (Cn) multimers based on unbound (or partially bound) monomer. Using grid-based Fast Fourier Transform approach, space exclusively searched best structure. This leads to improvements both in accuracy and running time over alternative, which run binary program ZDOCK filter results near-symmetry. The improved...
RAD52 plays crucial roles in several aspects of mammalian cells, including DNA double-strand breaks repair, viral infection, cancer development, and antibody class switching. To comprehensively elucidate the role maintaining genome stability uncover additional functions mammals, we performed transcriptomics proteomics analysis liver knockout mice. Transcriptomics reveals overexpression mitochondrial genes (RAD52KO) Proteomics RAD52KO mice shows that damage recognition proteins Cul4b Rad23a...
Stripe rust (Puccinia striiformis f. sp. tritici; Pst) and powdery mildew (Blumeria graminis Bgt) are important diseases of wheat (Triticum aestivum) worldwide. Increasingly evidences suggest that long intergenic ncRNAs (lincRNAs) developmentally regulated play roles in development stress responses plants. However, identification lincRNAs is still limited comparing with functional gene expression. The transcriptome the hexaploid line N9134 inoculated Chinese Pst race CYR31 Bgt E09 at 1, 2, 3...
Salinity is a major limiting factor for agricultural production worldwide. A better understanding of the mechanisms salinity stress response will aid efforts to improve plant salt tolerance. In this study, combination small RNA and mRNA degradome sequencing was used identify responsive-miRNAs their targets in barley. total 152 miRNAs belonging 126 families were identified, which 44 found be responsive with 30 up-regulated 25 down-regulated respectively. The majority salinity-responsive at 8h...
Drought is one of the major environmental constraints for wheat production world-wide. As progenitor and genetic reservoir common wheat, emmer considered as an invaluable gene pool breeding drought-tolerant wheat. Combining GWAS eGWAS analysis 107 accessions, we identified 86 QTLs, 105 462 eQTLs well 68 eQTL hotspots associating with drought tolerance (DT) in A complex regulatory network composed 185 upstream regulator 2432 downstream drought-responsive candidates was developed, which TtOTS1...
Abstract We present an evaluation of the results our ZDOCK and RDOCK algorithms in Rounds 3, 4, 5 protein docking challenge CAPRI. is a Fast Fourier Transform (FFT)‐based, initial‐stage rigid‐body algorithm, energy minimization algorithm for refining reranking results. Of 9 targets which we submitted predictions, attained at least acceptable accuracy 7, medium 6, high 3. These are evidence that combination with capable making accurate predictions on diverse set complexes. Proteins...
Abstract We present an evaluation of our protein–protein docking approach using the ZDOCK and ZRANK algorithms, in combination with structural clustering filtering, utilizing biological data Rounds 6–11 CAPRI experiment. achieved at least one prediction acceptable accuracy for five six targets submitted. In addition, two resulted medium‐accuracy predictions. new scoring portion exercise, we were able to attain three submitted predictions Target 26. Scoring was performed ZRANK, a algorithm...
Abstract Microsatellites are an important constituent of plant genome and distributed across entire genome. In this study, genome-wide analysis microsatellites in 8 Triticeae species 9 model plants revealed that microsatellite characteristics were similar among the species. Furthermore, markers designed wheat then used to analyze evolutionary relationship other Results displayed Aegilops tauschii was found be closest Triticum aestivum , followed by urartu turgidum speltoides while monococcum...
Mitogen-activated protein kinase (MAPK) cascades are the conserved and universal signal transduction modules in all eukaryotes, which play vital roles plant growth, development response to multiple stresses. In this study, we used bioinformatics methods identify 86 MAPKKK encoded by 73 genes Brachypodium. Phylogenetic analysis of family from Arabidopsis, rice Brachypodium has classified them into three subfamilies, 28 belonged MEKK, 52 Raf 6 ZIK subfamily respectively. Conserved motif,...
Determining the distribution and correspondence of genome-scale homologous genes in wheat are effective ways to uncover chromosome rearrangement that has occurred during crop evolution domestication, which can contribute improvements breeding. High-resolution comprehensive analysis genome by International Wheat Genome Sequencing Consortium (IWGSC) revealed a total 88,733 high-confidence four major types (1:1:1, 1:1:0, 0:1:1 1:0:1) among A, B D subgenomes wheat. This data was used compare...
Broomcorn millet (Panicum miliaceum L.) is one of the earliest domesticated cereals worldwide, holding significant agricultural, historical, and evolutionary importance. However, our genomic knowledge it rather limited at present, hampering further genetic studies. Here, we sequenced assembled chloroplast genome (cp) broomcorn compared with five other Panicoideae species. Results showed that cp was 139,826 bp in size, a typical quadripartite structure. In total, 108 genes were annotated 18...
Expansin proteins, a crucial class of intracellular are known to play vital role in facilitating processes like cell wall relaxation and growth. Recent discoveries have revealed that expansin proteins also significant functions plant growth, development, response resistance. However, the gene family, particularly emmer wheat, has not been thoroughly studied, terms evolution. In this study, we identified 63 TdEXPs 49 TtEXPs from latest genome versions wild wheat (WEW) durum (DW),...
Summary Wheat is one of the most important staple crops worldwide and also an excellent model species for crop evolution polyploidization studies. The breakthrough sequencing bread wheat genome progenitor genomes lays foundation to decipher complexity origin evolutionary process as well genetic consequences polyploidization. In this study, we sequenced 3286 BAC s from chromosome 7 DL cv. Chinese Spring integrated unmapped contigs IWGSC v1 available PacBio sequences close gaps present in...
We combine side-chain modeling, energy minimization and binding free calculation to predict point mutations with significant impacts on affinities (binding hotspots). Our method achieves high accuracy for two datasets (alanine-scanning in ASEdb 570 protease-inhibitor complexes). In particular, we can that lead improved success. discuss various factors may contribute the prediction accuracy, including amino acid mutate to, position of mutation.
The SSM/SLSM (spliceosomal Smith (SM)/SM-like (LSM)) genes are the central components of spliceosome in eukaryotes, which play an important role regulating RNA splicing, participating diverse biological processes. Although it has been detected Arabidopsis and rice etc. plants, members significance gene family wheat still not reported. In this study, we identified its progenitors at genome-scale, where 57 were wheat, together with 41, 17and 19 found Triticum dicoccoides, urartu, Aegilops...
A full-length cDNA sequence coding for Chitinase in mulberry, which we designated M-chitinase (GenBank accession number: HQ117891) was cloned based on mulberry expressed tags (ESTs) isolated from the library. Its full open reading frame obtained by RACE and RT-PCR. Sequence analysis showed that gene is 1392 bp length contains a 60 5’-UTR (un translated region) 255 3’-UTR. (ORF) of 1077 long, encoding 358 amino acids with predicted molecular weight 38.52KDa an isoelectric point 4.466....