Evidence map›Paper›PMID 38092381›Full record

ArticleThe Journal of heredity2024

Reference genome of Townsend's big-eared bat, Corynorhinus townsendii.

Samantha L R Capel, Natalie M Hamilton, Devaughn Fraser, Merly Escalona, Oanh Nguyen, Samuel Sacco, Ruta Sahasrabudhe, William Seligmann, Juan M Vazquez, Peter H Sudmant and 3 more

Abstract read
In one paragraph

Article in The Journal of heredity, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing 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

3 citing papers in PubMed.

  1. Article
  2. Article
  3. 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

13 authors.

Samantha L R CapelWildlife Genetics Research Unit, Wildlife Health Laboratory, California Department of Fish and Wildlife, Sacramento, CA, United States.ORCID 0000-0001-5014-5919
Natalie M HamiltonDepartment of Rangeland Wildlife and Fisheries Management, Texas A&M University, College Station, TX, United States.ORCID 0000-0002-5927-6197
Devaughn FraserConnecticut Department of Energy and Environmental Protection, Hartford, CT, United States.ORCID 0000-0002-4838-7107
Merly EscalonaDepartment of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, CA, United States.ORCID 0000-0003-0213-4777
Oanh NguyenDNA Technologies and Expression Analysis Core Laboratory, Genome Center, University of California Davis, Davis, CA, United States.ORCID 0000-0003-1492-2084
Samuel SaccoDepartment of Ecology and Evolutionary Biology, University of California Santa Cruz, Santa Cruz, CA, United States.ORCID 0000-0003-1227-8934
Ruta SahasrabudheDNA Technologies and Expression Analysis Core Laboratory, Genome Center, University of California Davis, Davis, CA, United States.ORCID 0000-0002-3285-6845
William SeligmannDepartment of Ecology and Evolutionary Biology, University of California Santa Cruz, Santa Cruz, CA, United States.ORCID 0000-0002-5762-3095
Juan M VazquezDepartment of Integrative Biology, University of California Berkeley, Berkeley, CA, United States.ORCID 0000-0001-8341-2390
Peter H SudmantDepartment of Integrative Biology, University of California Berkeley, Berkeley, CA, United States.ORCID 0000-0002-9573-8248
Michael L MorrisonDepartment of Rangeland Wildlife and Fisheries Management, Texas A&M University, College Station, TX, United States.ORCID 0000-0001-9298-8017
Robert K WayneDepartment of Ecology and Evolution, University of California Los Angeles, Los Angeles, CA, United States.ORCID 0000-0003-3537-2245
Michael R BuchalskiWildlife Genetics Research Unit, Wildlife Health Laboratory, California Department of Fish and Wildlife, Sacramento, CA, United States.ORCID 0000-0002-5917-3577

Funding

The evolution and diversity of mutation, molecular fidelity, and genome structureR35GM142916 · NIGMS · UNIVERSITY OF CALIFORNIA BERKELEY · PI Peter Heshedahl Sudmant · 2021 to 2026
$2.5M
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
NIGMS NIH HHS R35 GM142916NIH HHS S10 OD010786NIH HHS S10 OD018174
6 · The paper itself

Abstract

Townsend's big-eared bat, Corynorhinus townsendii, is a cave- and mine-roosting species found largely in western North America. Considered a species of conservation concern throughout much of its range, protection efforts would greatly benefit from understanding patterns of population structure, genetic diversity, and local adaptation. To facilitate such research, we present the first de novo genome assembly of C. townsendii as part of the California Conservation Genomics Project (CCGP). Pacific Biosciences HiFi long reads and Omni-C chromatin-proximity sequencing technologies were used to produce a de novo genome assembly, consistent with the standard CCGP reference genome protocol. This assembly comprises 391 scaffolds spanning 2.1 Gb, represented by a scaffold N50 of 174.6 Mb, a contig N50 of 23.4 Mb, and a benchmarking universal single-copy ortholog (BUSCO) completeness score of 96.6%. This high-quality genome will be a key tool for informed conservation and management of this vulnerable species in California and across its range.

Indexed as

ChiropteraAnimalsGenomeGenomicsNorth AmericaCalifornia Conservation Genomics ProjectCCGPChiropteralong-read assemblyVespertilionidae

Identifiers

PMID38092381
PMCPMC10936552

What OpenQuestion 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 OpenQuestion graph.