Evidence map›Paper›PMID 32873878›Full record

ArticleCommunications biology2020

Analysis of muntjac deer genome and chromatin architecture reveals rapid karyotype evolution.

Austin B Mudd, Jessen V Bredeson, Rachel Baum, Dirk Hockemeyer, Daniel S Rokhsar

Abstract read
In one paragraph

Article in Communications biology, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 papers.

0numbers the graph read from it
0cells of the map it votes in
30citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

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.

2 · The registry

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.

3 · Its place in the literature

Who cites it

30 citing papers in PubMed.

  1. Article
  2. Sperm DNA Fragmentation: The Concept and Its Use in Assisted Reproduction.Advances in experimental medicine and biology · 2026
    Review
  3. Article
  4. Chromosomal Instability and Chromoanagenesis as Forces for Genomic Evolution.Methods in molecular biology (Clifton, N.J.) · 2025
    Review
  5. Article
  6. Article
  7. Article
  8. Review
  9. Article
  10. Spindle architecture constrains karyotype in budding yeast.bioRxiv : the preprint server for biology · 2024
    Article
  11. Dynamics of karyotype evolution.Chaos (Woodbury, N.Y.) · 2024
    Article
  12. Article
  13. Remarkable chromosomes and karyotypes: A top 10 list.Molecular biology of the cell · 2024
    Review
  14. Article
  15. Article
  16. Review
  17. Hi-C sequencing unravels dynamic three-dimensional chromatin interactions in muntjac lineage: insights from chromosome fusions in Fea's muntjac genome.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2023
    Article
  18. High rates of structural rearrangements have shaped the chromosome evolution in dysploid Phaseolus beans.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2023
    Article
  19. Article
  20. Chromosomal conservatism vs chromosomal megaevolution: enigma of karyotypic evolution in Lepidoptera.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2023
    Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

5 authors.

Austin B MuddDepartment of Molecular and Cell Biology, University of California, Berkeley, CA, USA.ORCID http://orcid.org/0000-0003-0371-8555
Jessen V BredesonDepartment of Molecular and Cell Biology, University of California, Berkeley, CA, USA.ORCID http://orcid.org/0000-0001-5489-8512
Rachel BaumDepartment of Molecular and Cell Biology, University of California, Berkeley, CA, USA.
Dirk HockemeyerDepartment of Molecular and Cell Biology, University of California, Berkeley, CA, USA.ORCID http://orcid.org/0000-0002-5598-5092
Daniel S RokhsarDepartment of Molecular and Cell Biology, University of California, Berkeley, CA, USA. dsrokhsar@gmail.com.ORCID http://orcid.org/0000-0002-8704-2224

Funding

GENOMICST32HG000047 · NHGRI · UNIVERSITY OF CALIFORNIA BERKELEY · PI RASMUS NIELSEN, Daniel Soleyman Rokhsar · 2000 to 2026
$13.5M
POSTGRADUATE TRAINING PROGRAM IN GENETICST32GM007127 · NIGMS · UNIVERSITY OF CALIFORNIA BERKELEY · PI DILLIN, ANDREW G · 1985 to 2016
$7.9M
Univ of Calif Berkeley Chemistry-Biology Interface ProgramT32GM066698 · NIGMS · UNIVERSITY OF CALIFORNIA BERKELEY · PI CHANG, CHRISTOPHER J., FRANCIS, MATTHEW B · 2004 to 2023
$7.5M
Comparative Genetics and Genomics of XenopusR01GM086321 · NIGMS · UNIVERSITY OF CALIFORNIA BERKELEY · PI HARLAND, RICHARD M, ROKHSAR, DANIEL SOLEYMAN · 2009 to 2016
$2.5M
Systematic improvement of Xenopus gene annotations and reference genomesR01HD080708 · NICHD · UNIVERSITY OF CALIFORNIA BERKELEY · PI ROKHSAR, DANIEL SOLEYMAN · 2014 to 2017
$2.2M
Telomerase function in human tumor and stem cell biologyR01CA196884 · NCI · UNIVERSITY OF CALIFORNIA BERKELEY · PI HOCKEMEYER, DIRK · 2015 to 2019
$1.7M
Pacific Biosciences PacBio RS Single Molecule Real Time SequencerS10OD018174 · OD · UNIVERSITY OF CALIFORNIA BERKELEY · PI ROKHSAR, DANIEL SOLEYMAN · 2014 to 2014
$600k
Acquisition of Covaris E220 and Sciclone G3 systems for high throughput sequencinS10OD010786 · OD · UNIVERSITY OF CALIFORNIA AT DAVIS · PI COMAI, LUCA · 2012 to 2012
$311k
NCI NIH HHS R01 CA196884NCI NIH HHS R01CA196884NHGRI NIH HHS T32 HG000047NHGRI NIH HHS T32HG000047NICHD NIH HHS R01 HD080708NIGMS NIH HHS R01 GM086321NIGMS NIH HHS R01GM086321NIGMS NIH HHS T32 GM007127NIGMS NIH HHS T32GM007127NIGMS NIH HHS T32 GM066698NIGMS NIH HHS T32GM066698NIH HHS R01HD080708NIH HHS S10 OD010786NIH HHS S10OD010786NIH HHS S10 OD018174NIH HHS S10OD018174
6 · The paper itself

Abstract

Closely related muntjac deer show striking karyotype differences. Here we describe chromosome-scale genome assemblies for Chinese and Indian muntjacs, Muntiacus reevesi (2n = 46) and Muntiacus muntjak vaginalis (2n = 6/7), and analyze their evolution and architecture. The genomes show extensive collinearity with each other and with other deer and cattle. We identified numerous fusion events unique to and shared by muntjacs relative to the cervid ancestor, confirming many cytogenetic observations with genome sequence. One of these M. muntjak fusions reversed an earlier fission in the cervid lineage. Comparative Hi-C analysis showed that the chromosome fusions on the M. muntjak lineage altered long-range, three-dimensional chromosome organization relative to M. reevesi in interphase nuclei including A/B compartment structure. This reshaping of multi-megabase contacts occurred without notable change in local chromatin compaction, even near fusion sites. A few genes involved in chromosome maintenance show evidence for rapid evolution, possibly associated with the dramatic changes in karyotype.

Indexed as

Evolution, MolecularGenomeKaryotypeAnimalsChromatinChromosomes, MammalianFemaleMuntjacsPhylogenyChromatin

Identifiers

PMID32873878
PMCPMC7463020

What OpenQuestion holds

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Registered trials

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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 OpenQuestion graph.