High utility of Ultraconserved Elements (UCE) for disentangling
the elusive relationships of tarantulas

J 2023

High utility of Ultraconserved Elements (UCE) for disentangling the elusive relationships of tarantulas

ORTIZ MARTÍNEZ, David

Basic information

Original name

High utility of Ultraconserved Elements (UCE) for disentangling the elusive relationships of tarantulas

Authors

ORTIZ MARTÍNEZ, David (724 Spain, guarantor, belonging to the institution)

Edition

Zoologica Scripta, Wiley, 2023, 0300-3256

Other information

Language

English

Type of outcome

Článek v odborném periodiku

Field of Study

10613 Zoology

Country of publisher

United States of America

Confidentiality degree

není předmětem státního či obchodního tajemství

References:

URL

Impact factor

Impact factor: 2.500 in 2022

RIV identification code

RIV/00216224:14310/23:00132088

Organization unit

Faculty of Science

DOI

http://dx.doi.org/10.1111/zsc.12619

UT WoS

001022144900001

Keywords in English

concordance factor; Mygalomorphae; phylogenomics; Theraphosidae; UCE data mining

Abstract

V originále

Although tarantulas are a widespread, highly diversified, and charismatic spider group, our understanding of their evolution remains limited. A recent transcriptome-based approach, including 16% of the nominal tarantula genera (25), provided the first robust phylogenetic hypothesis of deep tarantula relationships. However, transcriptomics has practical downsides, making it less than ideal for phylogenomic analyses. Ultraconserved Elements (UCE) sequencing, a cost-effective alternative, allows for the simultaneous reading of hundreds of loci and utilizing samples with degraded DNA, including museum material, but its utility for resolving deep tarantula relationships remains to be tested. In this study, I recovered up to similar to 850 unique UCE loci from publicly available individual tarantula transcriptomes. Phylogenetic estimation using these loci resulted in topologies identical to those obtained from the published complete transcriptomic datasets, with limited phylogenetic uncertainty restricted to two branches in the tarantula tree of life. I conclude that UCE information has great potential for resolving at least moderate to deep tarantula relationships and that numerous UCE loci can be harvested from tarantula transcriptomic data. Finally, I provide databases of transcripts and UCE loci for the 27 currently available tarantula genera, facilitating their inclusion in future phylogenomic studies with deeper taxon coverage.

Links

LM2018140, research and development project

Name: e-Infrastruktura CZ (Acronym: e-INFRA CZ)

Investor: Ministry of Education, Youth and Sports of the CR

Citovat

ORTIZ MARTÍNEZ, David. High utility of Ultraconserved Elements (UCE) for disentangling the elusive relationships of tarantulas. Zoologica Scripta. Wiley, 2023, vol. 52, No 6, p. 645-653. ISSN 0300-3256. Available from: https://dx.doi.org/10.1111/zsc.12619.

@article{2332978,
   author = {Ortiz Martínez, David},
   article_number = {6},
   doi = {http://dx.doi.org/10.1111/zsc.12619},
   keywords = {concordance factor; Mygalomorphae; phylogenomics; Theraphosidae; UCE data mining},
   language = {eng},
   issn = {0300-3256},
   journal = {Zoologica Scripta},
   title = {High utility of Ultraconserved Elements (UCE) for disentangling the elusive relationships of tarantulas},
   url = {https://doi.org/10.1111/zsc.12619},
   volume = {52},
   year = {2023}
}

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PY  - 2023
TI  - High utility of Ultraconserved Elements (UCE) for disentangling the elusive relationships of tarantulas
JF  - Zoologica Scripta
VL  - 52
IS  - 6
SP  - 645-653
EP  - 645-653
PB  - Wiley
SN  - 03003256
KW  - concordance factor
KW  - Mygalomorphae
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KW  - Theraphosidae
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UR  - https://doi.org/10.1111/zsc.12619
N2  - Although tarantulas are a widespread, highly diversified, and charismatic spider group, our understanding of their evolution remains limited. A recent transcriptome-based approach, including 16% of the nominal tarantula genera (25), provided the first robust phylogenetic hypothesis of deep tarantula relationships. However, transcriptomics has practical downsides, making it less than ideal for phylogenomic analyses. Ultraconserved Elements (UCE) sequencing, a cost-effective alternative, allows for the simultaneous reading of hundreds of loci and utilizing samples with degraded DNA, including museum material, but its utility for resolving deep tarantula relationships remains to be tested. In this study, I recovered up to similar to 850 unique UCE loci from publicly available individual tarantula transcriptomes. Phylogenetic estimation using these loci resulted in topologies identical to those obtained from the published complete transcriptomic datasets, with limited phylogenetic uncertainty restricted to two branches in the tarantula tree of life. I conclude that UCE information has great potential for resolving at least moderate to deep tarantula relationships and that numerous UCE loci can be harvested from tarantula transcriptomic data. Finally, I provide databases of transcripts and UCE loci for the 27 currently available tarantula genera, facilitating their inclusion in future phylogenomic studies with deeper taxon coverage.
ER  -

ORTIZ MARTÍNEZ, David. High utility of Ultraconserved Elements (UCE) for disentangling the elusive relationships of tarantulas. \textit{Zoologica Scripta}. Wiley, 2023, vol.~52, No~6, p.~645-653. ISSN~0300-3256. Available from: https://dx.doi.org/10.1111/zsc.12619.

Detailed Information on Publication Record