Minhui Shi
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View article: Optimising Genome‐Wide Detection of Runs of Homozygosity: Impacts of Reference Genome Quality and Sequencing Parameters on Inbreeding Assessment
Optimising Genome‐Wide Detection of Runs of Homozygosity: Impacts of Reference Genome Quality and Sequencing Parameters on Inbreeding Assessment Open
Inbreeding and inbreeding depression pose a critical challenge to the persistence of small and isolated populations, driving the need for precise assessment of genomic metrics. Genome‐wide runs of homozygosity (ROH) have been widely used f…
View article: DHX9 as a prognostic biomarker and its biological roles in acute myeloid leukemia
DHX9 as a prognostic biomarker and its biological roles in acute myeloid leukemia Open
Our study discovers that DHX9 promotes AML development and may serve as a biomarker for AML, holding a better prospect for clinical application.
View article: SUCLG1 deficiency-induced histone succinylation impairs oncogene expression in acute myeloid leukemia
SUCLG1 deficiency-induced histone succinylation impairs oncogene expression in acute myeloid leukemia Open
Mitochondria-driven histone lysine succinylation is emerging as a critical signaling system that links cellular metabolism to the pathogenesis of diseases, including cancer. Here, we report that a global increase in protein/histone succiny…
View article: Population genetics reveal potential threats from low maternal genetic diversity in wild Asian elephants in China
Population genetics reveal potential threats from low maternal genetic diversity in wild Asian elephants in China Open
In China, wild Asian elephants (Elephas maximus) are primarily distributed in three prefectures in Southwest Yunnan, along the border with Laos and Myanmar. These elephants occur in small, fragmented populations and face significant threat…
View article: Population Genomics Reveals Elevated Inbreeding and Accumulation of Deleterious Mutations in White Raccoon Dogs
Population Genomics Reveals Elevated Inbreeding and Accumulation of Deleterious Mutations in White Raccoon Dogs Open
The formation of animal breeds usually begins with a small subsample from their ancestral population. Deleterious mutations accumulate in the population under genetic drift, inbreeding, and artificial selection during the development and m…
View article: Enhancing inbreeding estimation and global conservation insights through chromosome-level assemblies of the Chinese and Malayan pangolin
Enhancing inbreeding estimation and global conservation insights through chromosome-level assemblies of the Chinese and Malayan pangolin Open
A high-quality reference genome coupled with resequencing data is a promising strategy to address issues in conservation genomics. This has greatly enhanced the development of conservation plans for endangered species. Pangolins are fascin…
View article: Revealing extensive inbreeding and less efficient purging of deleterious mutations in wild Amur tigers in China
Revealing extensive inbreeding and less efficient purging of deleterious mutations in wild Amur tigers in China Open
Inbreeding increases genome homozygosity within populations, which can exacerbate inbreeding depression by exposing homozygous deleterious alleles that are responsible for declines in fitness traits. In small populations, genetic purging t…
View article: Large-scale genome sequencing of giant pandas improves the understanding of population structure and future conservation initiatives
Large-scale genome sequencing of giant pandas improves the understanding of population structure and future conservation initiatives Open
The extinction risk of the giant panda has been demoted from “endangered” to “vulnerable” on the International Union for Conservation of Nature Red List, but its habitat is more fragmented than ever before, resulting in 33 isolated giant p…
View article: Haplotype-resolved chromosome-scale genomes of the Asian and African Savannah Elephants
Haplotype-resolved chromosome-scale genomes of the Asian and African Savannah Elephants Open
View article: Genomic exploration of the endangered oriental stork, <i>Ciconia boyciana</i>, sheds light on migration adaptation and future conservation
Genomic exploration of the endangered oriental stork, <i>Ciconia boyciana</i>, sheds light on migration adaptation and future conservation Open
Background The oriental stork, Ciconia boyciana, is an endangered migratory bird listed on the International Union for Conservation of Nature’s Red List. The bird population has experienced a rapid decline in the past decades, with nest lo…
View article: Haplotype-resolved and chromosome-scale genomes provide insights into co-adaptation between the Amur tiger and Amur leopard
Haplotype-resolved and chromosome-scale genomes provide insights into co-adaptation between the Amur tiger and Amur leopard Open
The Amur tiger (Panthera tigris altaica) and Amur leopard (P. pardus orientalis) are two sympatric but competitive apex predators coexisting in the forests of Northeast Asia. They are both highly endangered animals on the planet, and their…
View article: Genome assembly and annotation of the Brown-Spotted Pit viper Protobothrops mucrosquamatus
Genome assembly and annotation of the Brown-Spotted Pit viper Protobothrops mucrosquamatus Open
The Brown-Spotted Pit viper (Protobothrops mucrosquamatus), also known as the Chinese habu, is a widespread and highly venomous snake distributed from Northeastern India to Eastern China. Genomics research can contribute to our understandi…
View article: Single-nucleus transcriptome inventory of giant panda reveals cellular basis for fitness optimization under low metabolism
Single-nucleus transcriptome inventory of giant panda reveals cellular basis for fitness optimization under low metabolism Open
Background Energy homeostasis is essential for the adaptation of animals to their environment and some wild animals keep low metabolism adaptive to their low-nutrient dietary supply. Giant panda is such a typical low-metabolic mammal exhib…
View article: The Genome Assembly and Annotation of the Brown-Spotted Pit Viper <em>Protobothrops mucrosquamatus</em>
The Genome Assembly and Annotation of the Brown-Spotted Pit Viper <em>Protobothrops mucrosquamatus</em> Open
Brown-Spotted Pit viper (Protobothrops mucrosquamatus), also known as the Chinese habu, is a widespread and highly venomous snake distributed from from northeastern India to eastern China. Genomics research can help provide much insight in…
View article: Genome assembly and annotation of the Sharp-nosed Pit Viper Deinagkistrodon acutus based on next-generation sequencing data
Genome assembly and annotation of the Sharp-nosed Pit Viper Deinagkistrodon acutus based on next-generation sequencing data Open
The study of the currently known >3,000 species of snakes can provide valuable insights into the evolution of their genomes. Deinagkistrodon acutus, also known as Sharp-nosed Pit Viper, one hundred-pacer viper or five-pacer viper, is a ven…
View article: Genome Assembly and Annotation of the Sharp-Nosed Pit Viper Deinagkistrodon acutus Based on Next-Generation Sequencing Data
Genome Assembly and Annotation of the Sharp-Nosed Pit Viper Deinagkistrodon acutus Based on Next-Generation Sequencing Data Open
The study of the currently known >3,000 species of snakes can provide valuable insights into the evolution of their genomes. Deinagkistrodon acutus, also known as Sharp-nosed Pit Viper, one hundred-pacer viper or five-pacer viper, is a …
View article: Large-scale population genomics of Malayan pangolins reveals deep diversification and a new species
Large-scale population genomics of Malayan pangolins reveals deep diversification and a new species Open
Background Archipelagos and oceanic islands often present high percentage of endemism due to rapid speciation. The Malayan pangolin is a species distributing at both mainland (southern Yunnan, China) and oceanic islands via Malayan peninsu…
View article: Population genomics reveals extensive inbreeding and purging of mutational load in wild Amur tigers
Population genomics reveals extensive inbreeding and purging of mutational load in wild Amur tigers Open
The inbreeding is a big threat for the persistence of genetic diversity in small and isolated populations of endangered species. The homozygous genome could exacerbate inbreeding depression by introducing homozygous deleterious alleles in …
View article: Annotation files for two elephant genome assemblies
Annotation files for two elephant genome assemblies Open
Genome annotation file for 'Haplotype-resolved chromosome-scale genomes of the Asian and African Savannah Elephants'
View article: Annotation files
Annotation files Open
Genome annotation file
View article: The chromosome-scale genome of the raccoon dog: Insights into its evolutionary characteristics
The chromosome-scale genome of the raccoon dog: Insights into its evolutionary characteristics Open
View article: Chromosome-level Genome of the Muskrat (<i>Ondatra zibethicus</i>)
Chromosome-level Genome of the Muskrat (<i>Ondatra zibethicus</i>) Open
The muskrat (Ondatra zibethicus) is a semi-aquatic rodent species with ecological, economic, and medicinal importance. Here, we present an improved genome assembly, which is the first high-quality chromosome-level genome of the muskrat wit…
View article: Whole-genome resequencing of Chinese pangolins reveals a population structure and provides insights into their conservation
Whole-genome resequencing of Chinese pangolins reveals a population structure and provides insights into their conservation Open
Poaching and trafficking have a substantial negative impact on the population growth and range expansion of the Chinese pangolin ( Manis pentadactyla ). However, recently reported activities of Chinese pangolins in several sites of Guangdo…
View article: Genomic investigation of the Chinese alligator reveals wild‐extinct genetic diversity and genomic consequences of their continuous decline
Genomic investigation of the Chinese alligator reveals wild‐extinct genetic diversity and genomic consequences of their continuous decline Open
Critically endangered species are usually restricted to small and isolated populations. High inbreeding without gene flow among populations further aggravates their threatened condition and reduces the likelihood of their long‐term surviva…
View article: Chromosome-Level Genome Assembly of the Green Peafowl (<i>Pavo muticus</i>)
Chromosome-Level Genome Assembly of the Green Peafowl (<i>Pavo muticus</i>) Open
The green peafowl (Pavo muticus) is facing a high risk of extinction due to the long-term and widespread threats of poaching and habitat conversion. Here, we present a high-quality chromosome-level genome assembly of the green peafowl with…
View article: The Chromosome-Scale Genome of the Raccoon Dog: Insights into the Genomic Basis of Invasiveness
The Chromosome-Scale Genome of the Raccoon Dog: Insights into the Genomic Basis of Invasiveness Open
View article: Large Differentiation of Extremely Threatened Chinese Pangolins Provide New Genomic Cues for Their Conservation
Large Differentiation of Extremely Threatened Chinese Pangolins Provide New Genomic Cues for Their Conservation Open
View article: Targeting JNK pathway promotes human hematopoietic stem cell expansion
Targeting JNK pathway promotes human hematopoietic stem cell expansion Open
View article: The mitochondrial DNA content can not predict the embryo viability
The mitochondrial DNA content can not predict the embryo viability Open
Objective To investigate whether the mitochondrial DNA content could predict the embryo viability Design Retrospective analysis. Setting Reproductive genetics laboratory Patient(s) A total of 421 biopsied samples obtained from 129 patients…