Sequence capture phylogenomics of eyeless Cicurina spiders from Texas caves, with emphasis on US federally-endangered species from Bexar County (Araneae, Hahniidae)

Marshal Hedin; Shahan Derkarabetian; Jennifer Blair; Pierre Paquin

doi:10.3897/zookeys.769.25814

Pamela B. Hart, Matthew L. Niemiller, Edward D. Burress, Jonathan W. Armbruster, William B. Ludt, Prosanta Chakrabarty (2020)
Cave‐adapted evolution in the North American amblyopsid fishes inferred using phylogenomics and geometric morphometrics. Evolution 74: 936.

DOI: 10.1111/evo.13958

Guilherme H. F. Azevedo, Jennifer Blair, Marshal Hedin (2024)
Evaluating possible anthropogenic impacts on gene flow and loss of genetic diversity in endangered Madla Cave Meshweaver spiders (Hahniidae, Cicurina madla). Conservation Genetics 25: 149.

DOI: 10.1007/s10592-023-01561-y

Siddharth Kulkarni, Hannah Wood, Michael Lloyd, Gustavo Hormiga (2020)
Spider‐specific probe set for ultraconserved elements offers new perspectives on the evolutionary history of spiders (Arachnida, Araneae). Molecular Ecology Resources 20: 185.

DOI: 10.1111/1755-0998.13099

Shahan Derkarabetian, Ligia R. Benavides, Gonzalo Giribet (2019)
Sequence capture phylogenomics of historical ethanol‐preserved museum specimens: Unlocking the rest of the vault. Molecular Ecology Resources 19: 1531.

DOI: 10.1111/1755-0998.13072

Shahan Derkarabetian, Stephanie Castillo, Peter K. Koo, Sergey Ovchinnikov, Marshal Hedin (2019)
A demonstration of unsupervised machine learning in species delimitation. Molecular Phylogenetics and Evolution 139: 106562.

DOI: 10.1016/j.ympev.2019.106562

Shahan Derkarabetian, Pierre Paquin, James Reddell, Marshal Hedin (2022)
Conservation genomics of federally endangered Texella harvester species (Arachnida, Opiliones, Phalangodidae) from cave and karst habitats of central Texas. Conservation Genetics 23: 401.

DOI: 10.1007/s10592-022-01427-9

Vera Opatova, Kellie Bourguignon, Jason E. Bond (2024)
Species delimitation with limited sampling: An example from rare trapdoor spider genus Cyclocosmia (Mygalomorphae, Halonoproctidae). Molecular Ecology Resources 24: .

DOI: 10.1111/1755-0998.13894

Marshal Hedin, Shahan Derkarabetian, Adan Alfaro, Martín J. Ramírez, Jason E. Bond (2019)
Phylogenomic analysis and revised classification of atypoid mygalomorph spiders (Araneae, Mygalomorphae), with notes on arachnid ultraconserved element loci. PeerJ 7: e6864.

DOI: 10.7717/peerj.6864

Guilherme H. F. Azevedo, Júlia S. Parreiras, Tierney Bougie, Peter Michalik, Jörg Wunderlich, Martín J. Ramírez (2021)
Fossils constrain biogeographical history in a clade of flattened spiders with transcontinental distribution. Journal of Biogeography 48: 3032.

DOI: 10.1111/jbi.14259

Shahan Derkarabetian, James Starrett, Marshal Hedin (2022)
Using natural history to guide supervised machine learning for cryptic species delimitation with genetic data. Frontiers in Zoology 19: .

DOI: 10.1186/s12983-022-00453-0

Jonathan A. Nations, Thomas C. Giarla, Muhd Amsyari Morni, Julius William Dee, Mark T. Swanson, Anna E. Hiller, Faisal Ali Anwarali Khan, Jacob A. Esselstyn (2022)
Molecular data from the holotype of the enigmatic Bornean Black Shrew, Suncus ater Medway, 1965 (Soricidae, Crocidurinae), place it in the genus Palawanosorex. ZooKeys 1137: 17.

DOI: 10.3897/zookeys.1137.94217

Y Miles Zhang, Jason L Williams, Andrea Lucky, Wiegmann Brian (2019)
Understanding UCEs: A Comprehensive Primer on Using Ultraconserved Elements for Arthropod Phylogenomics. Insect Systematics and Diversity 3: .

DOI: 10.1093/isd/ixz016

Darren Yeo, Amrita Srivathsan, Rudolf Meier, Jason Bond (2020)
Longer is Not Always Better: Optimizing Barcode Length for Large-Scale Species Discovery and Identification. Systematic Biology 69: 999.

DOI: 10.1093/sysbio/syaa014

Stefano Mammola, Melissa B. Meierhofer, Paulo A.V. Borges, Raquel Colado, David C. Culver, Louis Deharveng, Teo Delić, Tiziana Di Lorenzo, Tvrtko Dražina, Rodrigo L. Ferreira, Barbara Fiasca, Cene Fišer, Diana M. P. Galassi, Laura Garzoli, Vasilis Gerovasileiou, Christian Griebler, Stuart Halse, Francis G. Howarth, Marco Isaia, Joseph S. Johnson, Ana Komerički, Alejandro Martínez, Filippo Milano, Oana T. Moldovan, Veronica Nanni, Giuseppe Nicolosi, Matthew L. Niemiller, Susana Pallarés, Martina Pavlek, Elena Piano, Tanja Pipan, David Sanchez‐Fernandez, Andrea Santangeli, Susanne I. Schmidt, J. Judson Wynne, Maja Zagmajster, Valerija Zakšek, Pedro Cardoso (2022)
Towards evidence‐based conservation of subterranean ecosystems. Biological Reviews 97: 1476.

DOI: 10.1111/brv.12851

Jessica R. Marsh, Steven J. Milner, Matthew Shaw, Andrew J. Stempel, Mark S. Harvey, Michael G. Rix (2023)
A Case for Below-Ground Dispersal? Insights into the Biology, Ecology and Conservation of Blind Cave Spiders in the Genus Troglodiplura (Mygalomorphae: Anamidae). Insects 14: 449.

DOI: 10.3390/insects14050449

Joel Ledford, Shahan Derkarabetian, Carles Ribera, James Starrett, Jason E. Bond, Charles Griswold, Marshal Hedin (2021)
Phylogenomics and biogeography of leptonetid spiders (Araneae : Leptonetidae). Invertebrate Systematics 35: 332.

DOI: 10.1071/IS20065

Katie L. Erickson, Alicia Pentico, Andrea M. Quattrini, Catherine S. McFadden (2021)
New approaches to species delimitation and population structure of anthozoans: Two case studies of octocorals using ultraconserved elements and exons. Molecular Ecology Resources 21: 78.

DOI: 10.1111/1755-0998.13241

Guilherme H.F. Azevedo, Tierney Bougie, Martin Carboni, Marshal Hedin, Martín J. Ramírez (2022)
Combining genomic, phenotypic and Sanger sequencing data to elucidate the phylogeny of the two-clawed spiders (Dionycha). Molecular Phylogenetics and Evolution 166: 107327.

DOI: 10.1016/j.ympev.2021.107327

Stuart J. Longhorn, Chris A. Hamilton (2020)
New World Tarantulas. Chapter 2: 25.

DOI: 10.1007/978-3-030-48644-0_2