Evidence map›Paper›PMID 38758096›Full record

ArticleGenome biology and evolution2024

De Novo Genome Assembly for the Coppery Titi Monkey (Plecturocebus cupreus): An Emerging Nonhuman Primate Model for Behavioral Research.

Susanne P Pfeifer, Alexander Baxter, Logan E Savidge, Fritz J Sedlazeck, Karen L Bales

Abstract read
In one paragraph

Article in Genome biology and evolution, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.

0numbers the graph read from it
0cells of the map it votes in
6citing 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

6 citing papers in PubMed.

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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.

Susanne P PfeiferSchool of Life Sciences, Arizona State University, Tempe, AZ, USA.ORCID 0000-0003-1378-2913
Alexander BaxterDepartment of Psychology, University of California, Davis, CA, USA.
Logan E SavidgeDepartment of Psychology, University of California, Davis, CA, USA.
Fritz J SedlazeckHuman Genome Sequencing Center, Baylor College of Medicine, Houston, TX, USA.ORCID 0000-0001-6040-2691
Karen L BalesDepartment of Psychology, University of California, Davis, CA, USA.

Funding

National Institute on Aging (NIA) ColonyP51OD011107 · OD · UNIVERSITY OF CALIFORNIA AT DAVIS · PI Simon J. Atkinson · 2012 to 2026
$191.5M
Kappa opioid and oxytocin interactions in social buffering and separationR01MH125411 · NIMH · UNIVERSITY OF CALIFORNIA AT DAVIS · PI BALES, KAREN L. · 2021 to 2025
$3.6M
THE NEURAL BASIS OF PAIR-BONDING IN FEMALE TITI MONKEYSR01HD092055 · NICHD · UNIVERSITY OF CALIFORNIA AT DAVIS · PI BALES, KAREN L. · 2017 to 2021
$2.8M
Characterizing the full spectrum of genomic variation in biomedically-relevant primatesR35GM151008 · NIGMS · ARIZONA STATE UNIVERSITY-TEMPE CAMPUS · PI Susanne P Pfeifer · 2023 to 2026
$1.6M
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
California National Primate Research Center NIH P51OD011107Good Nature InstituteNational Science Foundation CAREER DEB-2045343NICHD NIH HHS R01 HD092055NIGMS NIH HHS R35 GM151008NIH HHS P51 OD011107NIH HHS R35GM151008NIH HHS S10 OD010786NIMH NIH HHS R01 MH125411
6 · The paper itself

Abstract

The coppery titi monkey (Plecturocebus cupreus) is an emerging nonhuman primate model system for behavioral and neurobiological research. At the same time, the almost entire absence of genomic resources for the species has hampered insights into the genetic underpinnings of the phenotypic traits of interest. To facilitate future genotype-to-phenotype studies, we here present a high-quality, fully annotated de novo genome assembly for the species with chromosome-length scaffolds spanning the autosomes and chromosome X (scaffold N50 = 130.8 Mb), constructed using data obtained from several orthologous short- and long-read sequencing and scaffolding techniques. With a base-level accuracy of ∼99.99% in chromosome-length scaffolds as well as benchmarking universal single-copy ortholog and k-mer completeness scores of >99.0% and 95.1% at the genome level, this assembly represents one of the most complete Pitheciidae genomes to date, making it an invaluable resource for comparative evolutionary genomics research to improve our understanding of lineage-specific changes underlying adaptive traits as well as deleterious mutations associated with disease.

Indexed as

GenomePitheciidaeAnimalsGenomicsModels, Animalcoppery titi monkeyhybrid assemblyPitheciidaeplatyrrhinePlecturocebus cupreusprimate

Identifiers

PMID38758096
PMCPMC11140417

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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.