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List of works by Guojie Zhang

31° South: The physiology of adaptation to arid conditions in a passerine bird

scientific article published on 06 August 2019

863 genomes reveal the origin and domestication of chicken

scientific article published on 25 June 2020

A draft genome assembly of spotted hyena, Crocuta crocuta

scientific article published on 28 April 2020

A draft genome sequence of the elusive giant squid, Architeuthis dux

scientific article published on 01 January 2020

A genomic comparison of two termites with different social complexity

scientific article

A global catalog of whole-genome diversity from 233 primate species

A near-chromosome-scale genome assembly of the gemsbok (Oryx gazella): an iconic antelope of the Kalahari desert

scientific article published on 01 February 2019

A new duck genome reveals conserved and convergently evolved chromosome architectures of birds and mammals

scientific article published on 01 January 2021

A new emu genome illuminates the evolution of genome configuration and nuclear architecture of avian chromosomes

scientific article published on 06 January 2021

A novel method for using RNA-seq data to identify imprinted genes in social Hymenoptera with multiply mated queens

scientific article published on 08 October 2020

A soft selective sweep during rapid evolution of gentle behaviour in an Africanized honeybee

scientific article published on 16 November 2017

A young Drosophila duplicate gene plays essential roles in spermatogenesis by regulating several Y-linked male fertility genes

scientific article

Adaptations to a subterranean environment and longevity revealed by the analysis of mole rat genomes.

scientific article

Adaptive diversity of innate immune receptor family short pentraxins in Murinae

scholarly article by Yan Li published in February 2012

Advances in genome editing technology and its promising application in evolutionary and ecological studies

scientific article

An Indo-Pacific Humpback Dolphin Genome Reveals Insights into Chromosome Evolution and the Demography of a Vulnerable Species

scientific article published on 03 October 2020

An effort to use human-based exome capture methods to analyze chimpanzee and macaque exomes

scientific article

Analyses of pig genomes provide insight into porcine demography and evolution

scientific article

Ancient and modern genomes unravel the evolutionary history of the rhinoceros family

scientific article

Ancient population genomics and the study of evolution

scientific article

Ascaris suum draft genome

scientific article

Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species

scientific article

Author Correction: 863 genomes reveal the origin and domestication of chicken

scientific article published on 20 July 2020

Author Correction: Dense sampling of bird diversity increases power of comparative genomics

Author Correction: Red fox genome assembly identifies genomic regions associated with tame and aggressive behaviours

scientific article published on 01 September 2018

Avian Binocularity and Adaptation to Nocturnal Environments: Genomic Insights from a Highly Derived Visual Phenotype

scientific article published on 01 August 2019

Avian genomes. A flock of genomes. Introduction

scientific article

Avianbase: a community resource for bird genomics

scientific article

Bone-associated gene evolution and the origin of flight in birds

scientific article

Caste-specific RNA editomes in the leaf-cutting ant Acromyrmex echinatior

scientific article

Cephalopod genomics: A plan of strategies and organization

scientific article (publication date: 10 October 2012)

Chromatin accessibility and transcriptome landscapes of Monomorium pharaonis brain

scientific article published on 08 July 2020

Comparative analysis of bat genomes provides insight into the evolution of flight and immunity

scientific article

Comparative genomic data of the Avian Phylogenomics Project

scientific article

Comparative genomics of parasitic silkworm microsporidia reveal an association between genome expansion and host adaptation

scientific article

Comparative genomics reveals insights into avian genome evolution and adaptation

scientific article

Comparative methylomics between domesticated and wild silkworms implies possible epigenetic influences on silkworm domestication

scientific article

Comparative performance of the BGISEQ-500 vs Illumina HiSeq2500 sequencing platforms for palaeogenomic sequencing

scientific article

Complementary symbiont contributions to plant decomposition in a fungus-farming termite.

scientific article

Complete resequencing of 40 genomes reveals domestication events and genes in silkworm (Bombyx).

scientific article

Complex evolutionary trajectories of sex chromosomes across bird taxa

scientific article published on 11 December 2014

Complexity of avian evolution revealed by family-level genomes

scientific article published in April 2024

Constrained vertebrate evolution by pleiotropic genes

article

Construction of Red Fox Chromosomal Fragments from the Short-Read Genome Assembly.

scientific article published on 20 June 2018

Convergent transcriptional specializations in the brains of humans and song-learning birds

scientific article

Correction to: High-coverage genomes to elucidate the evolution of penguins

scientific article published on 1 March 2020

Correction: An Effort to Use Human-Based Exome Capture Methods to Analyze Chimpanzee and Macaque Exomes.

scientific article published on 28 September 2012

Cross-comparison of the genome sequences from human, chimpanzee, Neanderthal and a Denisovan hominin identifies novel potentially compensated mutations

scientific article

Deciphering neo-sex and B chromosome evolution by the draft genome of Drosophila albomicans

scientific article

Deep RNA sequencing at single base-pair resolution reveals high complexity of the rice transcriptome

scientific article

Deep parallel sequencing reveals conserved and novel miRNAs in gill and hepatopancreas of giant freshwater prawn

scientific article

Dense sampling of bird diversity increases power of comparative genomics

scientific article published on 11 November 2020

Developmental plasticity shapes social traits and selection in a facultatively eusocial bee

scientific article published on 29 May 2020

Diverse coral reef invertebrates exhibit patterns of phylosymbiosis

scientific article published on 22 May 2020

Draft Genome Assembly and Population Genetics of an Agricultural Pollinator, the Solitary Alkali Bee (Halictidae: )

article

Draft genome assembly and population genetics of an agricultural pollinator, the solitary alkali bee (Halictidae: Nomia melanderi)

article

Draft genome of the Marco Polo Sheep (Ovis ammon polii).

scientific article

Draft genome of the leopard gecko, Eublepharis macularius

scientific article

Draft genome sequence of the Tibetan antelope

scientific article published on January 2013

Dynamic evolution of the alpha (α) and beta (β) keratins has accompanied integument diversification and the adaptation of birds into novel lifestyles

scientific article

Dynamic evolutionary history and gene content of sex chromosomes across diverse songbirds

scientific article published on 01 April 2019

Earth BioGenome Project: Sequencing life for the future of life

scientific article published on 23 April 2018

Epigenetic modification and inheritance in sexual reversal of fish

scientific article

Erratum to: Comparative performance of the BGISEQ-500 vs Illumina HiSeq2500 sequencing platforms for palaeogenomic sequencing

scholarly article published in GigaScience

Erratum to: The draft genome of a socially polymorphic halictid bee, Lasioglossum albipes

scientific article published on 12 February 2015

Erratum: Corrigendum: The draft genomes of soft-shell turtle and green sea turtle yield insights into the development and evolution of the turtle-specific body plan

article

Erratum: Single base–resolution methylome of the silkworm reveals a sparse epigenomic map

scholarly article published in Nature Biotechnology

Erratum: The sequence and de novo assembly of the giant panda genome

scientific article published in Nature

Evidence for a single loss of mineralized teeth in the common avian ancestor

scientific article published on 11 December 2014

Evolution of gene regulation in ruminants differs between evolutionary breakpoint regions and homologous synteny blocks

scientific article published on 13 February 2019

Evolutionary History, Genomic Adaptation to Toxic Diet, and Extinction of the Carolina Parakeet

scientific article published on 12 December 2019

Evolutionary genomics and adaptive evolution of the Hedgehog gene family (Shh, Ihh and Dhh) in vertebrates

scientific article

Evolutionary history of the extinct Sardinian dhole

scientific article published in 2021

Extraction method A v1 (protocols.io.iabcaan)

Functional roles of Aves class-specific cis-regulatory elements on macroevolution of bird-specific features

scientific article

Gene loss, adaptive evolution and the co-evolution of plumage coloration genes with opsins in birds

scientific article

Genetic basis of ruminant headgear and rapid antler regeneration

scientific article published on 21 June 2019

Genome analysis reveals insights into physiology and longevity of the Brandt's bat Myotis brandtii

scientific article

Genome and single-cell RNA-sequencing of the earthworm Eisenia andrei identifies cellular mechanisms underlying regeneration

scientific article published on 27 May 2020

Genome of Drosophila suzukii, the spotted wing drosophila

scientific article published on 09 December 2013

Genome sequence of a diabetes-prone rodent reveals a mutation hotspot around the ParaHox gene cluster

scientific article published on 3 July 2017

Genome sequencing and comparison of two nonhuman primate animal models, the cynomolgus and Chinese rhesus macaques

scientific article published on 16 October 2011

Genome sequencing reveals insights into physiology and longevity of the naked mole rat

scientific article

Genome-wide and caste-specific DNA methylomes of the ants Camponotus floridanus and Harpegnathos saltator

scientific article

Genomic Adaptations and Evolutionary History of the Extinct Scimitar-Toothed Cat, Homotherium latidens

scientific article published on 09 October 2020

Genomic Takeover by Transposable Elements in the Strawberry Poison Frog

article

Genomic analyses of the extinct Sardinian dhole ( Cynotherium sardous ) reveal its evolutionary history

Genomic and transcriptomic investigations of the evolutionary transition from oviparity to viviparity

scientific article published on 11 February 2019

Genomic comparison of the ants Camponotus floridanus and Harpegnathos saltator

scientific article

Genomic diversity and evolution of the head crest in the rock pigeon

scientific article

Genomic legacy of the African cheetah, Acinonyx jubatus

scientific article

Genomic regions influencing aggressive behavior in honey bees are defined by colony allele frequencies

scientific article published on 06 July 2020

Genomic signatures of near-extinction and rebirth of the crested ibis and other endangered bird species

scientific article

Genomics: Bird sequencing project takes off.

scientific article published in June 2015

Hi-C chromosome conformation capture sequencing of avian genomes using the BGISEQ-500 platform

scientific article published on 01 August 2020

High rate of chimeric gene origination by retroposition in plant genomes

scientific article published on 7 July 2006

High-coverage genomes to elucidate the evolution of penguins

scientific article published on 01 September 2019

High-coverage sequencing and annotated assemblies of the budgerigar genome

scientific article

High-coverage sequencing and annotated assembly of the genome of the Australian dragon lizard Pogona vitticeps

scientific article published on 28 September 2015

High-quality chromosome-level genome assembly and full-length transcriptome analysis of the pharaoh ant Monomorium pharaonis

scientific article published on 01 December 2020

Historic sampling of a vanishing beast: population structure and diversity in the black rhinoceros

scientific article published in 2023

Historical population declines prompted significant genomic erosion in the northern and southern white rhinoceros (Ceratotherium simum)

scientific article published in 2021

Hologenomic adaptations underlying the evolution of sanguivory in the common vampire bat

scientific article published on 19 February 2018

How genomics can help biodiversity conservation

Identification and characterization of insect-specific proteins by genome data analysis

scientific article (publication date: 4 April 2007)

Improving the ostrich genome assembly using optical mapping data

scientific article

In-depth tanscriptomic analysis on giant freshwater prawns

scientific article

Incomplete lineage sorting and phenotypic evolution in marsupials

scientific article published in 2022

Large-scale ruminant genome sequencing provides insights into their evolution and distinct traits

scientific article published on 21 June 2019

Low frequency of paleoviral infiltration across the avian phylogeny

scientific article

Mitogenomes uncover extinct penguin taxa and reveal island formation as a key driver of speciation ⬇️

scientific article published on 01 April 2019

Modern Siberian dog ancestry was shaped by several thousand years of Eurasian-wide trade and human dispersal

scientific article published in 2021

Modes of genetic adaptations underlying functional innovations in the rumen

scientific article published on 05 November 2020

Molecular traces of alternative social organization in a termite genome.

scientific article

Mudskipper genomes provide insights into the terrestrial adaptation of amphibious fishes

scientific article

Multi-omic detection of Mycobacterium leprae in archaeological human dental calculus

scientific article published on 05 October 2020

Multiple origins of a frameshift insertion in a mitochondrial gene in birds and turtles

scientific article published on 19 January 2021

Olfactory Receptor Subgenomes Linked with Broad Ecological Adaptations in Sauropsida

scientific article published on 28 July 2015

On the origin of new genes in Drosophila

scientific article

Outbred genome sequencing and CRISPR/Cas9 gene editing in butterflies

scientific article

Phylogenomic analyses data of the avian phylogenomics project

scientific article

Platypus and echidna genomes reveal mammalian biology and evolution

scientific article published on 06 January 2021

Population genomics reveal recent speciation and rapid evolutionary adaptation in polar bears

scientific article

Pre-extinction Demographic Stability and Genomic Signatures of Adaptation in the Woolly Rhinoceros

scientific article published on 30 July 2020

Probing the genomic limits of de-extinction in the Christmas Island rat

publication published on 09 March 2022

Progressive Cactus is a multiple-genome aligner for the thousand-genome era

scientific article published on 11 November 2020

Progressive alignment with Cactus: a multiple-genome aligner for the thousand-genome era

scientific article published on 9 August 2019

Protocols from "Comparative performance of the BGISEQ-500 vs Illumina sequencing platforms for palaeogenomic sequencing" v1 (protocols.io.h99b996)

RES-Scanner: a software package for genome-wide identification of RNA-editing sites

scientific article

Recalibrating Equus evolution using the genome sequence of an early Middle Pleistocene horse

scientific article

Reciprocal genomic evolution in the ant-fungus agricultural symbiosis

scientific article

Red fox genome assembly identifies genomic regions associated with tame and aggressive behaviours

scientific article published on 06 August 2018

Reference genome of wild goat (capra aegagrus) and sequencing of goat breeds provide insight into genic basis of goat domestication

scientific article published on 5 June 2015

Reference-assisted chromosome assembly ⬇️

scientific article published on January 10, 2013

Relaxed selection underlies genome erosion in socially parasitic ant species

scientific article published on 18 May 2021

Resequencing 50 accessions of cultivated and wild rice yields markers for identifying agronomically important genes

article

Response of an Afro-Palearctic bird migrant to glaciation cycles

scientific article

Response to Comment on "Whole-genome analyses resolve early branches in the tree of life of modern birds".

scientific article published on September 2015

Sensory rewiring in an echolocator: genome-wide modification of retinogenic and auditory genes in the bat Myotis davidii

scientific article

Sequencing and automated whole-genome optical mapping of the genome of a domestic goat (Capra hircus).

scientific article published on 23 December 2012

Sequencing, de novo assembling and annotating the genome of the endangered Chinese crocodile lizard Shinisaurus crocodilurus

scientific article

Single base-resolution methylome of the silkworm reveals a sparse epigenomic map.

scientific article published on 2 May 2010

Single-base resolution maps of cultivated and wild rice methylomes and regulatory roles of DNA methylation in plant gene expression

scientific article

Social evolution. Genomic signatures of evolutionary transitions from solitary to group living.

scientific article

Standards recommendations for the Earth BioGenome Project

scientific article published on 18 January 2022

Synthesis and Electrocatalytic Properties of Palladium Network Nanostructures

scholarly article by Guojie Zhang et al published 21 August 2012 in ChemPlusChem

Temporal Dynamics of Avian Populations during Pleistocene Revealed by Whole-Genome Sequences

scientific article

Temporal genomic evolution of bird sex chromosomes

scientific article

Testing cophylogeny between coral reef invertebrates and their bacterial and archaeal symbionts

scientific article published on 01 June 2021

The Earth BioGenome Project 2020: Starting the clock

scientific article published on 25 January 2022

The Genome of Dendrobium officinale Illuminates the Biology of the Important Traditional Chinese Orchid Herb

scientific article published on 24 December 2014

The Genomic Footprints of the Fall and Recovery of the Crested Ibis

scientific article published on 10 January 2019

The diploid genome sequence of an Asian individual

scientific article

The draft genome of a socially polymorphic halictid bee, Lasioglossum albipes

scientific article

The era of reference genomes in conservation genomics

scientific article published in March 2022

The evolutionary history of extinct and living lions

scientific article published on 04 May 2020

The first AsiaEvo conference, connecting Asian evolutionary biologists to the world

article

The gene expression network regulating queen brain remodeling after insemination and its parallel use in ants with reproductive workers

scientific article published on 16 September 2020

The genome and transcriptome of Japanese flounder provide insights into flatfish asymmetry

scientific article

The genome of the clonal raider ant Cerapachys biroi

scientific article

The genome of the cucumber, Cucumis sativus L

scientific article

The genome of the golden apple snail Pomacea canaliculata provides insight into stress tolerance and invasive adaptation

article by Conghui Liu et al published 1 September 2018 in GigaScience

The genome of the largest bony fish, ocean sunfish (Mola mola), provides insights into its fast growth rate

scientific article

The genome of the leaf-cutting ant Acromyrmex echinatior suggests key adaptations to advanced social life and fungus farming.

scientific article

The genomic consequences of adaptive divergence and reproductive isolation between species of manakins.

scientific article published on 26 February 2013

The half-life of DNA in bone: measuring decay kinetics in 158 dated fossils

scientific article (publication date: 7 December 2012)

The landscape of tolerated genetic variation in humans and primates

The locust genome provides insight into swarm formation and long-distance flight

scientific article published on January 2014

The mutation rate as an evolving trait

scientific article published in 2022

The origin of domestication genes in goats

scientific article published on 20 May 2020

The oyster genome reveals stress adaptation and complexity of shell formation

scientific article

The sequence and analysis of a Chinese pig genome

scientific article published on 15 November 2012

The sequence and de novo assembly of the giant panda genome

scientific article

The yak genome and adaptation to life at high altitude

scientific article

Three crocodilian genomes reveal ancestral patterns of evolution among archosaurs

scientific article

Towards complete and error-free genome assemblies of all vertebrate species

scientific article

Towards reconstructing the ancestral brain gene-network regulating caste differentiation in ants

article

Transcriptome and network changes in climbers at extreme altitudes

scientific article

Triangulation of the human, chimpanzee, and Neanderthal genome sequences identifies potentially compensated mutations

scientific article

Turtle ghrelin

scientific article

Two Antarctic penguin genomes reveal insights into their evolutionary history and molecular changes related to the Antarctic environment

scientific article

Validation of key sponge symbiont pathways using genome‐centric metatranscriptomics

scientific article published on 21 September 2023

Variation in predicted COVID-19 risk among lemurs and lorises

scholarly article by Christian Roos published in 2021

Variation in predicted COVID-19 risk among lemurs and lorises

scholarly article by Lukas Kuderna published in 2021

Whole-Genome Identification, Phylogeny, and Evolution of the Cytochrome P450 Family 2 (CYP2) Subfamilies in Birds

scientific article

Whole-genome analyses resolve early branches in the tree of life of modern birds

scientific article

Whole-genome sequence of Schistosoma haematobium

scientific article

Whole-genome sequence of a flatfish provides insights into ZW sex chromosome evolution and adaptation to a benthic lifestyle

scientific article published on 2 February 2014

Why sequence all eukaryotes?

scientific article published on 01 January 2022

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