A5077864427- Genomics and Phylogenetic Studies
- Chromosomal and Genetic Variations
- RNA Research and Splicing
- Genomics and Chromatin Dynamics
- RNA and protein synthesis mechanisms
- CRISPR and Genetic Engineering
- RNA modifications and cancer
- Genetic and Clinical Aspects of Sex Determination and Chromosomal Abnormalities
- Genetic diversity and population structure
- Cancer-related molecular mechanisms research
- Animal Genetics and Reproduction
- Epigenetics and DNA Methylation
- Fish Ecology and Management Studies
- Bat Biology and Ecology Studies
- Insect Resistance and Genetics
- Neurobiology and Insect Physiology Research
- RNA regulation and disease
- Plant Water Relations and Carbon Dynamics
- Evolution and Genetic Dynamics
- Photosynthetic Processes and Mechanisms
- Spider Taxonomy and Behavior Studies
- Cancer Genomics and Diagnostics
- Single-cell and spatial transcriptomics
- Genetic and phenotypic traits in livestock
- Machine Learning in Bioinformatics
Chinese Academy of Sciences
2015-2025
Institute of Zoology
2014-2024
University of Chinese Academy of Sciences
2015-2024
Fujian Normal University
2024
State Key Laboratory of Integrated Management of Pest Insects and Rodents
2014-2024
Guangdong University of Finance
2024
Chinese PLA General Hospital
2024
Gansu Agricultural University
2024
Chinese Institute for Brain Research
2021-2024
University of Science and Technology of China
2024
Phylogeny and characteristics of ruminants Ruminants are a diverse group mammals that includes families containing well-known taxa such as deer, cows, goats. However, their evolutionary relationships have been contentious, the origins distinctive digestive systems headgear, including antlers horns (see Perspective by Ker Yang). To understand among ruminants, L. Chen et al. sequenced 44 species representing 6 performed phylogenetic analysis. From this analysis, they were able to resolve...
To investigate the origin and evolution of essential genes, we identified phenotyped 195 young protein-coding which originated 3 to 35 million years ago in Drosophila. Knocking down expression with RNA interference showed that 30% newly arisen genes are for viability. The proportion is similar every evolutionary age group examined. Under constitutive silencing these lethality was high pupal stage also found larval stages. Lethality attributed diverse cellular developmental defects, such as...
Whether and how certain transposable elements with viral origins, such as endogenous retroviruses (ERVs) dormant in our genomes, can become awakened contribute to the aging process is largely unknown. In human senescent cells, we found that HERVK (HML-2), most recently integrated ERVs, are unlocked transcribe genes produce retrovirus-like particles (RVLPs). These RVLPs constitute a transmissible message elicit senescence phenotypes young which be blocked by neutralizing antibodies. The...
Polyploidy or whole-genome duplication (WGD) is a major event that drastically reshapes genome architecture and often assumed to be causally associated with organismal innovations radiations. The 2R hypothesis suggests two WGD events (1R 2R) occurred during early vertebrate evolution. However, the timing of relative divergence gnathostomes (jawed vertebrates) cyclostomes (jawless hagfishes lampreys) unresolved whether these underlie phenotypic diversification remains elusive. Here we present...
Mammalian X chromosomes evolved under various mechanisms including sexual antagonism, the faster-X process, and meiotic sex chromosome inactivation (MSCI). These forces may contribute to nonrandom chromosomal distribution of sex-biased genes. In order understand evolution gene content on autosome these forces, we dated human mouse protein-coding genes miRNA vertebrate phylogenetic tree. We found that recently acquired a burst young male-biased genes, which is consistent with fixation...
How the human brain evolved has attracted tremendous interests for decades. Motivated by case studies of primate-specific genes implicated in function, we examined whether or not young genes, those emerging genome-wide lineages specific to primates rodents, showed distinct spatial and temporal patterns transcription compared old which had existed before primate rodent split. We found consistent across different sources expression data: there is a significantly larger proportion expressed...
Tinkering with pre-existing genes has long been known as a major way to create new genes. Recently, however, motherless protein-coding have found emerged de novo from ancestral non-coding DNAs. How these originated is not well addressed date. Here we identified 24 hominoid-specific precise origination timing in vertebrate phylogeny. Strand-specific RNA–Seq analyses were performed five rhesus macaque tissues (liver, prefrontal cortex, skeletal muscle, adipose, and testis), which then...
We investigated the correlation between chromosomal location and age distribution of new male-biased genes formed by duplications via DNA intermediates (DNA-level) or de novo origination in Drosophila . Our genome-wide analysis revealed an excess young X-linked genes. The proportion then diminishes through time, leading to autosomal switch enrichment was also present both protein-coding on D. pseudoobscura neo-X chromosome microRNA melanogaster These observations that evolution is more...
The origination of new genes contributes to phenotypic evolution in humans. Two major challenges the study are inference gene ages and annotation their protein-coding potential. To tackle these challenges, we created GenTree, an integrated online database that compiles age inferences from three methods together with functional genomic data for genes. Genome-wide comparison revealed synteny-based pipeline (SBP) is most suited recently duplicated genes, whereas protein-family–based useful...
Primate-specific genes and isoforms could provide insight into human brain diseases. Our bioinformatic analysis revealed that there are possibly five of GDNF gene with different pre- pro-regions by inter- intra-exon splicing. By using TaqMan primer probe sets, designed between exons, we verified the expression all isoforms. Furthermore, a novel GDNFOS was found to be transcribed from opposite strand gene. has four exons spliced GDNFOS1 GDNFOS2 long noncoding RNAs, GDNFOS3 encodes protein 105...
Understanding of the RNA editing process has been broadened considerably by next generation sequencing technology; however, several issues regarding this regulatory step remain unresolved – strategies to accurately delineate editome, mechanism which its profile is maintained, and evolutionary functional relevance. Here we report an accurate quantitative editome for rhesus macaque, a close relative human. By combining genome transcriptome multiple tissues from same animal, identified 31,250...
Major evolutionary transitions are enigmas, and the most notable enigma is between invertebrates vertebrates, with numerous spectacular innovations. To search for molecular connections involved, we asked whether global epigenetic changes may offer a clue by surveying inheritance reprogramming of parental DNA methylation across metazoans. We focused on gametes early embryos, where methylomes known to evolve divergently fish mammals. Here, find that methylome during embryogenesis occurs...
Known as the 'third polar region', Qinghai-Tibet Plateau represents one of harshest highland environments in world and yet a number organisms thrive there. Previous studies birds, animals humans have focused on well-differentiated populations later stages phenotypic divergence. The adaptive processes during initial phase adaptation remain poorly understood. We studied human commensal, Eurasian Tree Sparrow, which has followed agriculture to Plateau. Despite strong differentiation at multiple...
The widely used clustered regularly interspaced short palindromic repeats (CRISPR)/CRISPR-associated nuclease (Cas) system is thought to have evolved from IS200/IS605 transposons. TnpB proteins, encoded by one type of transposon, are considered be the evolutionary ancestors Cas12 nucleases, which been engineered function as RNA-guided DNA endonucleases for genome editing in bacteria and human cells. smaller than Cas use animal systems, but feasibility this approach plants remained unknown....
Long-read sequencing, exemplified by PacBio, revolutionizes genomics, overcoming challenges like repetitive sequences. However, the high DNA requirement ( > 1 µg) is prohibitive for small organisms. We develop a low-input (100 ng), low-cost, and amplification-free library-generation method PacBio sequencing (LILAP) using Tn5-based tagmentation circularization within one tube. test LILAP with two Drosophila melanogaster individuals, generate near-complete genomes, surpassing preexisting...
Objectives Sepsis is the major cause of death for critically ill patients. Recent progress in proteomics permits a thorough characterization mechanisms associated with critical illness. The purpose this study was to screen potential biomarkers early prognostic assessment patients sepsis. Methods For discovery stage, 30 sepsis different prognoses were selected. Urinary proteins identified using isobaric tags relative and absolute quantitation (iTRAQ) coupled LC-MS/MS. Mass spec instrument...