A5075249897- Echinoderm biology and ecology
- Genomics and Phylogenetic Studies
- Invertebrate Immune Response Mechanisms
- Marine Bivalve and Aquaculture Studies
- Chromosomal and Genetic Variations
- RNA and protein synthesis mechanisms
- Plant Virus Research Studies
- RNA modifications and cancer
- Aquaculture disease management and microbiota
- RNA Research and Splicing
- SARS-CoV-2 and COVID-19 Research
- Viral gastroenteritis research and epidemiology
- Molecular Biology Techniques and Applications
- Aquaculture Nutrition and Growth
- Vector-borne infectious diseases
- Cancer-related molecular mechanisms research
- MicroRNA in disease regulation
- Insect-Plant Interactions and Control
- Bacteriophages and microbial interactions
- Animal Virus Infections Studies
- Antimicrobial Peptides and Activities
- Plant and Fungal Interactions Research
- Viral Infections and Vectors
- Genetic diversity and population structure
- Microbial Community Ecology and Physiology
Nankai University
2015-2024
Ministry of Agriculture and Rural Affairs
2023-2024
Liaoning Ocean and Fisheries Research Institute
2015-2024
Liaoning Academy of Agricultural Sciences
2024
Minzu University of China
2024
Ningbo University
2024
First Affiliated Hospital of Xi'an Jiaotong University
2024
University of Rochester Medical Center
2016-2024
Southwest Forestry University
2024
Tianjin Medical University
2001-2023
This paper reports the genome sequence of domesticated tomato, a major crop plant, and draft for its closest wild relative; comparative genomics reveal very little divergence between two genomes but some important differences with potato genome, another food in genus Solanum. Tomato (Solanum lycopersicum) is plant model system fruit development. Solanum one largest angiosperm genera1 includes annual perennial plants from diverse habitats. Here we present high-quality relative,...
Next-generation massively parallel DNA sequencing technologies provide ultrahigh throughput at a substantially lower unit data cost; however, the are very short read length sequences, making de novo assembly extremely challenging. Here, we describe novel method for of large genomes from sequences. We successfully assembled both Asian and African human genome achieving an N50 contig size 7.4 5.9 kilobases (kb) scaffold 446.3 61.9 kb, respectively. The development this creates new...
Using next-generation sequencing technology alone, we have successfully generated and assembled a draft sequence of the giant panda genome. The contigs (2.25 gigabases (Gb)) cover approximately 94% whole genome, remaining gaps (0.05 Gb) seem to contain carnivore-specific repeats tandem repeats. Comparisons with dog human showed that genome has lower divergence rate. assessment genes potentially underlying some its unique traits indicated bamboo diet might be more dependent on gut microbiome...
Zhangjun Fei and colleagues report the draft genome of a Chinese elite watermelon inbred line 97103 resequencing 20 diverse accessions that represent three subspecies Citrullus lunatus. Comparative genome-wide analyses identify extent genetic diversity population structure germplasm. Watermelon, lanatus, is an important cucurbit crop grown throughout world. Here we high-quality sequence east Asia cultivar (2n = 2× 22) containing 23,440 predicted protein-coding genes. genomics analysis...
BACKGROUND/OBJECTIVES To determine the associations of nursing home registered nurse (RN) staffing, overall quality care, and concentration Medicaid or racial ethnic minority residents with 2019 coronavirus disease (COVID‐19) confirmed cases deaths by April 16, 2020, among Connecticut residents. DESIGN Cross‐sectional analysis on (n = 215) COVID‐19 report, linked to other files county counts deaths. Multivariable two‐part models determined key characteristics likelihood at least one case (or...
Flowering time and an ability to tolerate abiotic stresses are important for plant growth development. We characterized BBX24, a zinc finger transcription factor gene, from Chrysanthemum morifolium found it be associated with both flowering stress tolerance. Transgenic lines suppressed expression of Cm-BBX24 (Cm-BBX24-RNAi) flowered earlier than wild-type plants showed decreased tolerance freezing drought stresses. Global analysis revealed that genes photoperiod gibberellin (GA) biosynthesis...
We assess whether posttraumatic stress disorder (PTSD) varies in prevalence, diagnostic criteria endorsement, and type frequency of potentially traumatic events (PTEs) among a nationally representative US sample 5071 non-Latino whites, 3264 Latinos, 2178 Asians, 4249 African Americans, 1476 Afro-Caribbeans.PTSD other psychiatric disorders were evaluated using the World Mental Health-Composite International Diagnostic Interview (WMH-CIDI) national household that oversampled ethnic/racial...
Small RNAs (sRNA), including microRNAs (miRNA) and small interfering (siRNA), are produced abundantly in plants animals function regulating gene expression or defense against virus viroid infection. Analysis of siRNA profiles upon infection plant may allow for identification, strain differentiation, de novo assembly genomes. In the present study, four suspected virus-infected tomato samples collected U.S. Mexico were used sRNA library construction deep sequencing. Each generated between 5–7...
Abstract Background Chrysanthemum is one of the most important ornamental crops in world and drought stress seriously limits its production distribution. In order to generate a functional genomics resource obtain deeper understanding molecular mechanisms regarding chrysanthemum responses dehydration stress, we performed large-scale transcriptome sequencing plants under using Illumina technology. Results Two cDNA libraries constructed from mRNAs control dehydration-treated seedlings were...
The flavonoids are phenylpropanoid-derived metabolites that ubiquitous in plants, playing many roles growth and development. Recently, we observed fruit rinds of yellow casaba muskmelons (Cucumis melo 'Inodorous Group') accumulate naringenin chalcone, a flavonoid pigment. With RNA-sequencing analysis bulked segregants representing the tails population segregating for chalcone accumulation followed by fine mapping genetic transformation, identified Kelch domain-containing F-box protein coding...
The usability of the NGS technologies heavily relies on accuracy data. Many research groups developed different programs to clean sequenced raw data by removing adapter contamination and trimming low-quality nucleotides. However, they are not optimized process from any specific equipment. In this study, we present an pipeline Fastq_clean DNA-seq RNA-seq illumina sequencer. can remove low quality nucleotides precisely keep as many qualified possible. batchly export statistics information for...
Abstract Sea cucumber ( Apostichopus japonicus ) is an ecologically and economically important species in East South‐East Asia. This project aimed to identify large numbers of gene‐associated markers differentially expressed genes (DEGs) after lipopolysaccharides (LPS) challenge A. using high‐throughput transcriptome sequencing. A total 162 million high‐quality reads 174 raw were obtained by deep sequencing Illumina HiSeq™ 2000 platform. Assembly these generated 94 704 unigenes, with read...
ABSTRACT Productive infection of Trichoplusia ni cells by the baculovirus Autographa californica multiple nucleopolyhedrovirus (AcMNPV) leads to expression ∼156 viral genes and results in dramatic cell remodeling. How transcriptome responds was unknown due lack a reference genome for T. . We used an ∼60-Gb RNA sequencing (RNA-seq) data set from infected uninfected generate annotate de novo assembly approximately 70,322 unigenes (assembled transcripts), representing 48-h cycle. Using...
In this study, we reported two featured series of rRNA-derived RNA fragments (rRFs) from the small sequencing (sRNA-seq) data Amblyomma testudinarium using Illunima platform. Two rRFs (rRF5 and rRF3) were precisely aligned to 5' 3' ends 5.8S 28S rRNA gene. The rRF5 rRF3 significantly more highly expressed than located in body genes. These contained perfectly reads, lengths which varied progressively with 1-bp differences. same expression pattern exist ubiquitously ticks human. cellular...
The complete genomic sequence of a new tobamovirus in tomatoes was determined through deep sequencing and assembly small RNAs, then validated Sanger sequencing. Based on the low identity (≤85%) to known viruses close phylogenetic relationship tobamoviruses, it identified as species.
In this study, we sequenced the first full-length insect transcriptome using Erthesina fullo Thunberg based on PacBio platform. We constructed quantitative transcription map of animal mitochondrial genomes and built a straightforward concise methodology to investigate gene transcription, RNA processing, mRNA maturation several other related topics. Most results were consistent with previous studies, while best our knowledge some findings reported for time in study. The new included high...
Few studies about bamboo naturally occurring mutants have been reported so far. Using an integrated anatomy, mathematics and genomics approach, we systematically characterized the cellular molecular basis underlying abnormal internode development of Pseudosasa japonica var. tsutsumiana, a stable variant with dwarf swollen internodes that are caused by compressed spiral growth cells in bottom part internode. P. tsutsumiana is slow-growth disorderly cell division during fast stage. Comparative...
Summary Nowadays, the true economic and nutritional value of food is underpinned by both origin quality traits, more often expressed as increased benefits derived from source. Gut microbiota contribute to metabolism host health, therefore, it may be suitable a qualifying indicator species. Here, we investigated relationships between gut sea cucumber ( Apostichopus japonicus ), valuable aquaculture species in Asia, with their origins metrics. Based on data 287 intestinal samples, generated...