Evidence map›Paper›PMID 34247236›Full record

ArticleGenome biology and evolution2021

A Chromosome-Level Genome of the Agile Gracile Mouse Opossum (Gracilinanus agilis).

Ran Tian, Kai Han, Yuepan Geng, Chen Yang, Han Guo, Chengcheng Shi, Shixia Xu, Guang Yang, Xuming Zhou, Vadim N Gladyshev and 7 more

Open access · goldAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Genome biology and evolution, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing papers in PubMed
0.3field-weighted citation impact, top 44% of its field
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

2 citing papers in PubMed, 4 citations in OpenAlex.

  1. Article
  2. 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

17 authors at 8 institutions in 5 countries.

Ran TianIntegrative Biology Laboratory, College of Life Sciences, Nanjing Normal University, Jiangsu, China.
Kai HanBGI-Qingdao, BGI-Shenzhen, Qingdao, Shandong, China.
Yuepan GengIntegrative Biology Laboratory, College of Life Sciences, Nanjing Normal University, Jiangsu, China.
Chen YangIntegrative Biology Laboratory, College of Life Sciences, Nanjing Normal University, Jiangsu, China.
Han GuoIntegrative Biology Laboratory, College of Life Sciences, Nanjing Normal University, Jiangsu, China.
Chengcheng ShiBGI-Qingdao, BGI-Shenzhen, Qingdao, Shandong, China.
Shixia XuJiangsu Key Laboratory for Biodiversity and Biotechnology, College of Life Sciences, Nanjing Normal University, Jiangsu, China.
Guang YangJiangsu Key Laboratory for Biodiversity and Biotechnology, College of Life Sciences, Nanjing Normal University, Jiangsu, China.
Xuming ZhouKey Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences, Beijing, China.
Vadim N GladyshevDivision of Genetics, Department of Medicine, Brigham and Women's Hospital and Harvard Medical School, Boston, Massachusetts, USA.
Xin LiuBGI-Qingdao, BGI-Shenzhen, Qingdao, Shandong, China.
Lisa K ChopinGhrelin Research Group, Translational Research Institute, School of Biomedical Sciences, Queensland University of Technology, Brisbane, Queensland, Australia.
Diana O FisherSchool of Biological Sciences, University of Queensland, Brisbane, Queensland, Australia.
Andrew M BakerSchool of Biology and Environmental Science, Queensland University of Technology, Brisbane, Queensland, Australia.
Natália O LeinerLaboratório de Ecologia de Mamíferos, Instituto de Biologia, Universidade Federal de Uberlândia, MG, Brazil.
Guangyi FanBGI-Qingdao, BGI-Shenzhen, Qingdao, Shandong, China.
Inge SeimIntegrative Biology Laboratory, College of Life Sciences, Nanjing Normal University, Jiangsu, China.ORCID 0000-0001-8594-7217
Nanjing Normal University · CNTranslational Research Institute · AUBGI Group (China) · CNBrigham and Women's Hospital · USChinese Academy of Sciences · CNQueensland University of Technology · AUThe University of Queensland · AUUniversidade Federal de Uberlândia · BR

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

There are more than 100 species of American didelphid marsupials (opossums and mouse opossums). Limited genomic resources for didelphids exists, with only two publicly available genome assemblies compared with dozens in the case of their Australasian counterparts. This discrepancy impedes evolutionary and ecological research. To address this gap, we assembled a high-quality chromosome-level genome of the agile gracile mouse opossum (Gracilinanus agilis) using a combination of stLFR sequencing, polishing with mate-pair data, and anchoring onto pseudochromosomes using Hi-C. This species employs a rare life-history strategy, semelparity, and all G. agilis males and most females die at the end of their first breeding season after succumbing to stress and exhaustion. The 3.7-Gb chromosome-level assembly, with 92.6% anchored onto pseudochromosomes, has a scaffold N50 of 683.5 Mb and a contig N50 of 56.9 kb. The genome assembly shows high completeness, with a mammalian BUSCO score of 88.1%. Around 49.7% of the genome contains repetitive elements. Gene annotation yielded 24,425 genes, of which 83.9% were functionally annotated. The G. agilis genome is an important resource for future studies of marsupial biology, evolution, and conservation.

Indexed as

ChromosomesGenomeOpossumsAnimalsFemaleGenomicsMaleMolecular Sequence Annotationchromosome-levelgenomeGracilinanusmouse opossumSouth America

Identifiers

PMID34247236
PMCPMC8390783
OpenAlexW3179391077

What Socratic holds

Textmetadata
LicenceCC BY-NC
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.