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Sánchez-de la Vega G, Gasca-Pineda J, Martínez-Cárdenas A, Vernes SC, Teeling EC, Mai M, Aguirre-Planter E, Eguiarte LE, Phillips CD, Ortega J. The genome sequence of the endemic Mexican common mustached Bat, Pteronotus mexicanus. Miller, 1902 [Mormoopidae; Pteronotus]. Gene 2024; 929:148821. [PMID: 39111456 DOI: 10.1016/j.gene.2024.148821] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/07/2024] [Revised: 07/05/2024] [Accepted: 08/02/2024] [Indexed: 08/10/2024]
Abstract
We describe here the first characterization of the genome of the bat Pteronotus mexicanus, an endemic species of Mexico, as part of the Mexican Bat Genome Project which focuses on the characterization and assembly of the genomes of endemic bats in Mexico. The genome was assembled from a liver tissue sample of an adult male from Jalisco, Mexico provided by the Texas Tech University Museum tissue collection. The assembled genome size was 1.9 Gb. The assembly of the genome was fitted in a framework of 110,533 scaffolds and 1,659,535 contigs. The ecological importance of bats such as P. mexicanus, and their diverse ecological roles, underscores the value of having complete genomes in addressing information gaps and facing challenges regarding their function in ecosystems and their conservation.
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Affiliation(s)
- Guillermo Sánchez-de la Vega
- Laboratorio de Evolución Molecular y Experimental, Departamento de Ecología Evolutiva, Instituto de Ecología, Universidad Nacional Autónoma de México, Ciudad de México, México; Facultad de Estudios Superiores Iztacala, UNAM. Avenida de Los Barrios, #1 Colonia Los Reyes Iztacala, 54090, Tlalnepantla, Edo. de México
| | - Jaime Gasca-Pineda
- Laboratorio de Evolución Molecular y Experimental, Departamento de Ecología Evolutiva, Instituto de Ecología, Universidad Nacional Autónoma de México, Ciudad de México, México
| | - Anahí Martínez-Cárdenas
- Laboratorio de Bioconservación y Manejo, Posgrado en Ciencias Quimicobiológicas, Departamento de Zoología, Escuela Nacional de Ciencias Biológicas, Instituto Politécnico Nacional, Ciudad de México, México; Departamento de Conservación de la Biodiversidad, El Colegio de la Frontera Sur, Unidad Villahermosa (ECOSUR-Villahermosa), Villahermosa, Tabasco, México
| | - Sonja C Vernes
- School of Biology, University of St Andrews, St Andrews, Scotland, UK; Neurogenetics of Vocal Communication Group, Max Planck Institute for Psycholinguistics, Nijmegen, Gelderland, the Netherlands
| | - Emma C Teeling
- School of Biology and Environmental Science, University College Dublin, Dublin, Leinster, Ireland; Wellcome Sanger Institute, Hinxton, England, UK
| | - Meike Mai
- School of Biology, University of St Andrews, St Andrews, Scotland, UK
| | - Erika Aguirre-Planter
- Laboratorio de Evolución Molecular y Experimental, Departamento de Ecología Evolutiva, Instituto de Ecología, Universidad Nacional Autónoma de México, Ciudad de México, México
| | - Luis E Eguiarte
- Laboratorio de Evolución Molecular y Experimental, Departamento de Ecología Evolutiva, Instituto de Ecología, Universidad Nacional Autónoma de México, Ciudad de México, México
| | - Caleb D Phillips
- Department of Biological Sciences, Texas Tech University, Box 43131, Lubbock, TX 79409, USA; Natural Science Research Laboratory, Museum of Texas Tech University, Box 43191, Lubbock, TX 79409, USA
| | - Jorge Ortega
- Laboratorio de Bioconservación y Manejo, Posgrado en Ciencias Quimicobiológicas, Departamento de Zoología, Escuela Nacional de Ciencias Biológicas, Instituto Politécnico Nacional, Ciudad de México, México.
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Pavan AC, Marroig G. Integrating multiple evidences in taxonomy: species diversity and phylogeny of mustached bats (Mormoopidae: Pteronotus). Mol Phylogenet Evol 2016; 103:184-198. [PMID: 27421565 DOI: 10.1016/j.ympev.2016.07.011] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/08/2015] [Revised: 04/07/2016] [Accepted: 07/11/2016] [Indexed: 11/28/2022]
Abstract
A phylogenetic systematic perspective is instrumental in recovering new species and their evolutionary relationships. The advent of new technologies for molecular and morphological data acquisition and analysis, allied to the integration of knowledge from different areas, such as ecology and population genetics, allows for the emergence of more rigorous, accurate and complete scientific hypothesis on species diversity. Mustached bats (genus Pteronotus) are a good model for the application of this integrative approach. They are a widely distributed and a morphologically homogeneous group, but comprising species with remarkable differences in their echolocation strategy and feeding behavior. The latest systematic review suggested six species with 17 subspecies in Pteronotus. Subsequent studies using discrete morphological characters supported the same arrangement. However, recent papers reported high levels of genetic divergence among conspecific taxa followed by bioacoustic and geographic agreement, suggesting an underestimated diversity in the genus. To date, no study merging genetic evidences and morphometric variation along the entire geographic range of this group has been attempted. Based on a comprehensive sampling including representatives of all current taxonomic units, we attempt to delimit species in Pteronotus through the application of multiple methodologies and hierarchically distinct datasets. The molecular approach includes six molecular markers from three genetic transmission systems; morphological investigations used 41 euclidean distances estimated through three-dimensional landmarks collected from 1628 skulls. The phylogenetic analysis reveals a greater diversity than previously reported, with a high correspondence among the genetic lineages and the currently recognized subspecies in the genus. Discriminant analysis of variables describing size and shape of cranial bones support the rising of the genetic groups to the specific status. Based on multiples evidences, we present an updated taxonomic arrangement composed by 16 extant species and a new and more robust phylogenetic hypothesis for the species included in the genus Pteronotus. Studies developed under such integrative taxonomic approach are timely for a deeper and wider comprehension of Neotropical diversity, representing the first step for answering broader questions on evolutionary and ecological aspects of Neotropical life history.
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Affiliation(s)
- Ana Carolina Pavan
- Departamento de Genética e Biologia Evolutiva, IB/Universidade de São Paulo, 05508090, São Paulo, SP, Brazil.
| | - Gabriel Marroig
- Departamento de Genética e Biologia Evolutiva, IB/Universidade de São Paulo, 05508090, São Paulo, SP, Brazil
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O'Leary MA, Bloch JI, Flynn JJ, Gaudin TJ, Giallombardo A, Giannini NP, Goldberg SL, Kraatz BP, Luo ZX, Meng J, Ni X, Novacek MJ, Perini FA, Randall ZS, Rougier GW, Sargis EJ, Silcox MT, Simmons NB, Spaulding M, Velazco PM, Weksler M, Wible JR, Cirranello AL. The placental mammal ancestor and the post-K-Pg radiation of placentals. Science 2013; 339:662-7. [PMID: 23393258 DOI: 10.1126/science.1229237] [Citation(s) in RCA: 622] [Impact Index Per Article: 56.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/02/2022]
Abstract
To discover interordinal relationships of living and fossil placental mammals and the time of origin of placentals relative to the Cretaceous-Paleogene (K-Pg) boundary, we scored 4541 phenomic characters de novo for 86 fossil and living species. Combining these data with molecular sequences, we obtained a phylogenetic tree that, when calibrated with fossils, shows that crown clade Placentalia and placental orders originated after the K-Pg boundary. Many nodes discovered using molecular data are upheld, but phenomic signals overturn molecular signals to show Sundatheria (Dermoptera + Scandentia) as the sister taxon of Primates, a close link between Proboscidea (elephants) and Sirenia (sea cows), and the monophyly of echolocating Chiroptera (bats). Our tree suggests that Placentalia first split into Xenarthra and Epitheria; extinct New World species are the oldest members of Afrotheria.
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Affiliation(s)
- Maureen A O'Leary
- Department of Anatomical Sciences, School of Medicine, HSC T-8 (040), Stony Brook University, Stony Brook, NY 11794-8081, USA.
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Fitzpatrick BM, Turelli M. THE GEOGRAPHY OF MAMMALIAN SPECIATION: MIXED SIGNALS FROM PHYLOGENIES AND RANGE MAPS. Evolution 2007. [DOI: 10.1111/j.0014-3820.2006.tb01140.x] [Citation(s) in RCA: 138] [Impact Index Per Article: 8.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
Affiliation(s)
- Benjamin M. Fitzpatrick
- Section of Evolution and Ecology and Center for Population Biology University of California, Davis, California 95616
| | - Michael Turelli
- Section of Evolution and Ecology and Center for Population Biology University of California, Davis, California 95616
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Teeling EC, Madsen O, Murphy WJ, Springer MS, O'Brien SJ. Nuclear gene sequences confirm an ancient link between New Zealand's short-tailed bat and South American noctilionoid bats. Mol Phylogenet Evol 2003; 28:308-19. [PMID: 12878467 DOI: 10.1016/s1055-7903(03)00117-9] [Citation(s) in RCA: 44] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
Molecular and morphological hypotheses disagree on the phylogenetic position of New Zealand's short-tailed bat Mystacina tuberculata. Most morphological analyses place Mystacina in the superfamily Vespertilionoidea, whereas molecular studies unite Mystacina with the Neotropical noctilionoids and imply a shared Gondwanan history. To date, competing hypotheses for the placement of Mystacina have not been addressed with a large concatenation of nuclear protein sequences. We investigated this problem using 7.1kb of nuclear sequence data that included segments from five nuclear protein-coding genes for representatives of 14 bat families and six laurasiatherian outgroups. We employed the Thorne/Kishino method of molecular dating, allowing for simultaneous constraints from the fossil record and varying rates of molecular evolution on different branches on the phylogenetic tree, to estimate basal divergence times within key chiropteran clades. Maximum likelihood, minimum evolution, maximum parsimony, and Bayesian posterior probabilities all provide robust support for the association of Mystacina with the South American noctilionoids. The basal divergence within Chiroptera was estimated at 67mya and the mystacinid/noctilionoid split was calculated at 47mya. Although the mystacinid lineage is too young to have originated in New Zealand before it split from the other Gondwanan landmasses (80mya), the exact geographic origin of these lineages is still uncertain and will not be answered until more fossils are found. It is most probable that Mystacina dispersed from Australia to New Zealand while other noctilionoid bats either remained in or dispersed to South America.
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Affiliation(s)
- Emma C Teeling
- Basic Research Program, Laboratory of Genomic Diversity, SAIC-Frederick, National Cancer Institute Inc., Frederick, MD 21702, USA.
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