ArticleProceedings of the National Academy of Sciences of the United States of America2023
Three amphioxus reference genomes reveal gene and chromosome evolution of chordates.
Open access · hybridAbstract read
In one paragraph
Article in Proceedings of the National Academy of Sciences of the United States of America, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.
0numbers the graph read from it
0cells of the map it votes in
31citing papers in PubMed
7.4field-weighted citation impact, top 2% of its field
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
31 citing papers in PubMed, 50 citations in OpenAlex.
- Fgf evolution in vertebrates: insights from cyclostomes.BMC genomics · 2026Article
- Article
- Insights into cephalochordate genome and gene evolution from the early-diverging amphioxusProceedings of the National Academy of Sciences of the United States of America · 2026Article
- Decoding the Avian Missing Gene Mystery: Dot Chromosomes Unmask Extensive Gene Loss and Novel Genetic Instability.Genome biology and evolution · 2026Article
- Germline de novo mutation rate of the highly heterozygous amphioxus genome.Molecular biology and evolution · 2026Article
- Genomic insights into chromosomal fusion and its evolutionary implications for zokors.Molecular biology and evolution · 2026Article
- Deep conservation of cis-regulatory elements and chromatin organization in echinoderms uncover ancestral regulatory features of animal genomes.Nature ecology & evolution · 2026Article
- Evolutionary dynamics of sex determination in Branchiostoma belcheri driven by repeated transposition of a single novel gene.Nature communications · 2026Article
- Evolution of chromosomes and nuclear architectures of amniotes.Nature communications · 2025Article
- Direct detection of meiotic recombination events in the highly heterozygous amphioxus genome.Advanced biotechnology · 2025Article
- Article
- The highly dynamic pangenome of basal chordates is enriched in defence and immunity genes and is inherited following the Mendelian law.PLoS genetics · 2025Article
- The genome sequence of the amphioxus,Wellcome open research · 2025Article
- Evolution and regulation of animal sex chromosomes.Nature reviews. Genetics · 2025Review
- Single-cell profiling of the amphioxus digestive tract reveals conservation of endocrine cells in chordates.Science advances · 2024Article
- Single-cell Transcriptomic Studies Unveil Potential Nodes of the Notochord Gene Regulatory Network.Integrative and comparative biology · 2024Review
- Article
- Annelid Comparative Genomics and the Evolution of Massive Lineage-Specific Genome Rearrangement in Bilaterians.Molecular biology and evolution · 2024Article
- Evolutionary origin of the chordate nervous system revealed by amphioxus developmental trajectories.Nature ecology & evolution · 2024Article
- Comparative genomics illuminates karyotype and sex chromosome evolution of sharks.Cell genomics · 2024Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
34 authors at 11 institutions in 4 countries.
Zhen HuangFujian Key Laboratory of Special Marine Bio-resources Sustainable Utilization & Fujian Key Laboratory of Developmental and Neurobiology, College of Life Sciences, Fujian Normal University, Fuzhou, Fujian 350117, China.ORCID 0000-0002-8908-0355
Luohao XuKey Laboratory of Freshwater Fish Reproduction and Development (Ministry of Education), Key Laboratory of Aquatic Science of Chongqing, School of Life Sciences, Southwest University, Chongqing 400715, China.
Cheng CaiThe Ministry of Education Key Laboratory of Biosystems Homeostasis and Protection and Zhejiang Provincial Key Laboratory for Cancer Molecular Cell Biology, Life Sciences Institute, Zhejiang University, Hangzhou, Zhejiang 310058, China.ORCID 0000-0003-3277-3537
Yitao ZhouFujian Key Laboratory of Special Marine Bio-resources Sustainable Utilization & Fujian Key Laboratory of Developmental and Neurobiology, College of Life Sciences, Fujian Normal University, Fuzhou, Fujian 350117, China.
Jing LiuDepartment of Neuroscience and Developmental Biology, University of Vienna, Vienna 1090, Austria.ORCID 0000-0003-0420-1769
Zaoxu XuKey Laboratory of Freshwater Fish Reproduction and Development (Ministry of Education), Key Laboratory of Aquatic Science of Chongqing, School of Life Sciences, Southwest University, Chongqing 400715, China.ORCID 0000-0003-4192-7083
Zexian ZhuThe Ministry of Education Key Laboratory of Biosystems Homeostasis and Protection and Zhejiang Provincial Key Laboratory for Cancer Molecular Cell Biology, Life Sciences Institute, Zhejiang University, Hangzhou, Zhejiang 310058, China.
Wen KangThe Ministry of Education Key Laboratory of Biosystems Homeostasis and Protection and Zhejiang Provincial Key Laboratory for Cancer Molecular Cell Biology, Life Sciences Institute, Zhejiang University, Hangzhou, Zhejiang 310058, China.ORCID 0000-0002-1024-7782
Wan CenThe Public Service Platform for Industrialization Development Technology of Marine Biological Medicine and Product of State Oceanic Administration, College of Life Sciences, Fujian Normal University, Fuzhou, Fujian 350117, China.
Surui PeiAnnoroad Gene Technology Co., Ltd, Beijing 100180, China.
Duo ChenFujian Key Laboratory of Special Marine Bio-resources Sustainable Utilization & Fujian Key Laboratory of Developmental and Neurobiology, College of Life Sciences, Fujian Normal University, Fuzhou, Fujian 350117, China.
Chenggang ShiState Key Laboratory of Cellular Stress Biology, School of Life Sciences, Xiamen University, Xiamen, Fujian 361102, China.
Xiaotong WuState Key Laboratory of Cellular Stress Biology, School of Life Sciences, Xiamen University, Xiamen, Fujian 361102, China.
Yongji HuangInstitute of Oceanography, Minjiang University, Fuzhou, Fujian 350108, China.ORCID 0000-0003-2513-5983
Chaohua XuFujian Key Laboratory of Special Marine Bio-resources Sustainable Utilization & Fujian Key Laboratory of Developmental and Neurobiology, College of Life Sciences, Fujian Normal University, Fuzhou, Fujian 350117, China.
Yanan YanFujian Key Laboratory of Special Marine Bio-resources Sustainable Utilization & Fujian Key Laboratory of Developmental and Neurobiology, College of Life Sciences, Fujian Normal University, Fuzhou, Fujian 350117, China.
Ying YangFujian Key Laboratory of Special Marine Bio-resources Sustainable Utilization & Fujian Key Laboratory of Developmental and Neurobiology, College of Life Sciences, Fujian Normal University, Fuzhou, Fujian 350117, China.
Ting XueFujian Key Laboratory of Special Marine Bio-resources Sustainable Utilization & Fujian Key Laboratory of Developmental and Neurobiology, College of Life Sciences, Fujian Normal University, Fuzhou, Fujian 350117, China.
Wenjin HeFujian Key Laboratory of Special Marine Bio-resources Sustainable Utilization & Fujian Key Laboratory of Developmental and Neurobiology, College of Life Sciences, Fujian Normal University, Fuzhou, Fujian 350117, China.
Xuefeng HuFujian Key Laboratory of Special Marine Bio-resources Sustainable Utilization & Fujian Key Laboratory of Developmental and Neurobiology, College of Life Sciences, Fujian Normal University, Fuzhou, Fujian 350117, China.
Yanding ZhangFujian Key Laboratory of Special Marine Bio-resources Sustainable Utilization & Fujian Key Laboratory of Developmental and Neurobiology, College of Life Sciences, Fujian Normal University, Fuzhou, Fujian 350117, China.
Youqiang ChenFujian Key Laboratory of Special Marine Bio-resources Sustainable Utilization & Fujian Key Laboratory of Developmental and Neurobiology, College of Life Sciences, Fujian Normal University, Fuzhou, Fujian 350117, China.
Changwei BiState Key Laboratory of Bioelectronics, School of Biological Science and Medical Engineering, Southeast University, Nanjing, Jiangsu 210096, China.
Chunpeng HeState Key Laboratory of Bioelectronics, School of Biological Science and Medical Engineering, Southeast University, Nanjing, Jiangsu 210096, China.
Lingzhan XueAquaculture and Genetic breeding laboratory, Freshwater Fisheries Research Institute of Fujian, Fuzhou, Fujian 350002, China.
Shijun XiaoCollege of Plant Protection, Jilin Agricultural University, Changchun, Jilin 130118, China.
Zhicao YueDepartment of Cell Biology and Medical Genetics, Carson International Cancer Center, and Guangdong Key Laboratory for Genome Stability and Disease Prevention, Shenzhen University School of Medicine, Shenzhen, Guangdong 518060, China.ORCID 0000-0001-5729-3842
Yu JiangAnnoroad Gene Technology Co., Ltd, Beijing 100180, China.
Jr-Kai YuInstitute of Cellular and Organismic Biology, Academia Sinica, Taipei 11529, Taiwan.ORCID 0000-0001-8591-0529
Erich D JarvisLaboratory of Neurogenetics of Language, The Rockefeller University, New York, NY 10065.ORCID 0000-0001-8931-5049
Guang LiState Key Laboratory of Cellular Stress Biology, School of Life Sciences, Xiamen University, Xiamen, Fujian 361102, China.ORCID 0000-0002-5543-5349
Gang LinFujian Key Laboratory of Special Marine Bio-resources Sustainable Utilization & Fujian Key Laboratory of Developmental and Neurobiology, College of Life Sciences, Fujian Normal University, Fuzhou, Fujian 350117, China.ORCID 0000-0002-8989-3647
Qiujin ZhangFujian Key Laboratory of Special Marine Bio-resources Sustainable Utilization & Fujian Key Laboratory of Developmental and Neurobiology, College of Life Sciences, Fujian Normal University, Fuzhou, Fujian 350117, China.
Qi ZhouThe Ministry of Education Key Laboratory of Biosystems Homeostasis and Protection and Zhejiang Provincial Key Laboratory for Cancer Molecular Cell Biology, Life Sciences Institute, Zhejiang University, Hangzhou, Zhejiang 310058, China.ORCID 0000-0002-7419-2047
Fujian Normal University · CNZhejiang University · CNXiamen University · CNState Key Laboratory of Digital Medical EngineeringUniversity of Vienna · ATInstitute of Cellular and Organismic Biology, Academia Sinica · TWJilin Agricultural University · CNMinjiang University · CNRockefeller University · USShenzhen University · CNSouthwest University · CN
Funding
EC | European Research Council (ERC) 677696National Natural Science Foundation of China (NSFC) 31722050
Abstract
The slow-evolving invertebrate amphioxus has an irreplaceable role in advancing our understanding of the vertebrate origin and innovations. Here we resolve the nearly complete chromosomal genomes of three amphioxus species, one of which best recapitulates the 17 chordate ancestor linkage groups. We reconstruct the fusions, retention, or rearrangements between descendants of whole-genome duplications, which gave rise to the extant microchromosomes likely existed in the vertebrate ancestor. Similar to vertebrates, the amphioxus genome gradually establishes its three-dimensional chromatin architecture at the onset of zygotic activation and forms two topologically associated domains at the
Indexed as
LanceletsAnimalsChromatinGene RearrangementMultigene FamilySex ChromosomesChromatinamphioxusgenomemicrochromosomessex chromosomestopologically associated domains
Identifiers
What Socratic holds
Textmetadata
LicenceCC BY-NC-ND
Read underepoch 390
Registered trials
None linked
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the Socratic graph.