Pub Date : 2025-01-01Epub Date: 2025-01-10DOI: 10.56179/001c.128167
Taylor Hains, Therese Catanach, Stacy Pirro, John Bates, Shannon Hackett
We present the complete genome sequences of 22 species of owls. Illumina sequencing was performed on DNA extracted from wild-caught specimens. The reads were assembled using a de novo method followed by a finishing step. The raw and assembled data are publicly available via Genbank.
{"title":"The Complete Genome Sequences of 22 Species of Owls (Strigiformes, Aves).","authors":"Taylor Hains, Therese Catanach, Stacy Pirro, John Bates, Shannon Hackett","doi":"10.56179/001c.128167","DOIUrl":"https://doi.org/10.56179/001c.128167","url":null,"abstract":"<p><p>We present the complete genome sequences of 22 species of owls. Illumina sequencing was performed on DNA extracted from wild-caught specimens. The reads were assembled using a <i>de novo</i> method followed by a finishing step. The raw and assembled data are publicly available via Genbank.</p>","PeriodicalId":72362,"journal":{"name":"Biodiversity genomes","volume":"2025 ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11741190/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143017252","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Bruno F Melo Melo, Stacy Pirro, Melanie L J Stiassny
We present the complete genome sequences of 20 species of African tetras, robbers, and tigerfishes in the families Alestidae, Hepsetidae, and Lepidarchidae. Illumina sequencing was performed on genetic material from wild-caught and aquarium specimens. The reads were assembled using a de novo method followed by a finishing step. The raw and assembled data are publicly available via GenBank.
{"title":"The Complete Genome Sequences of 20 Species of African Tetras and Relatives of Families Alestidae, Hepsetidae, and Lepidarchidae (Teleostei: Characiformes).","authors":"Bruno F Melo Melo, Stacy Pirro, Melanie L J Stiassny","doi":"10.56179/001c.128235","DOIUrl":"10.56179/001c.128235","url":null,"abstract":"<p><p>We present the complete genome sequences of 20 species of African tetras, robbers, and tigerfishes in the families Alestidae, Hepsetidae, and Lepidarchidae. Illumina sequencing was performed on genetic material from wild-caught and aquarium specimens. The reads were assembled using a <i>de novo</i> method followed by a finishing step. The raw and assembled data are publicly available via GenBank.</p>","PeriodicalId":72362,"journal":{"name":"Biodiversity genomes","volume":"2025 ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11801383/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143366896","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2024-12-01Epub Date: 2024-12-30DOI: 10.56179/001c.127693
Lucas S Medeiros, Sergio M Q Lima, Mario de Pinna, Igor C A Souto-Santos, Stacy Pirro, Waldir M Berbel-Filho
Listrura and Microcambeva are two genera of small, rare and elusive catfishes of the Trichomycteridae family, endemic to the Atlantic Forest coastal drainages in Brazil. Listrura comprises 13 species with slender bodies, absent pelvic fins, and a distinct caudal-fin and caudal-peduncle morphology, while Microcambeva includes eight species with translucent bodies, typically buried in sandy substrates with exposed nasal barbels. The two genera inhabit fragile environments that are undergoing accelerated degradation, with Listrura camposae and L. nematopteryx classified as "Critically Endangered" (CR), and L. picinguabae as "Near Threatened" (NT). Microcambeva species face similar threats, with M. bendego proposed as CR and M. draco as "Endangered" (EN). Over the past two decades, collection efforts and taxonomic descriptions have expanded the diversity of these two genera, with descriptions of 11 species of Listrura and seven of Microcambeva species in that period. To address gaps in genetic data for those taxa, we herein present draft version of whole-genome sequences for two Listrura species - L. nematopteryx and L. boticario - and five Microcambeva species - M. barbata, M. watu, M. jucuensis, M. bendego, and M. ribeirae. These genomic data are critical for future studies on the evolutionary history and systematics of these unique catfishes, contributing to foundational knowledge of their biodiversity.
{"title":"Whole-Genome Sequencing of two <i>Listrura</i> and five <i>Microcambeva</i> Species (Trichomycteridae, Siluriformes), Rare and Threatened catfishes from the Atlantic Forest.","authors":"Lucas S Medeiros, Sergio M Q Lima, Mario de Pinna, Igor C A Souto-Santos, Stacy Pirro, Waldir M Berbel-Filho","doi":"10.56179/001c.127693","DOIUrl":"10.56179/001c.127693","url":null,"abstract":"<p><p><i>Listrura</i> and <i>Microcambeva</i> are two genera of small, rare and elusive catfishes of the Trichomycteridae family, endemic to the Atlantic Forest coastal drainages in Brazil. <i>Listrura</i> comprises 13 species with slender bodies, absent pelvic fins, and a distinct caudal-fin and caudal-peduncle morphology, while <i>Microcambeva</i> includes eight species with translucent bodies, typically buried in sandy substrates with exposed nasal barbels. The two genera inhabit fragile environments that are undergoing accelerated degradation, with <i>Listrura camposae</i> and <i>L. nematopteryx</i> classified as \"Critically Endangered\" (CR), and <i>L. picinguabae</i> as \"Near Threatened\" (NT). <i>Microcambeva</i> species face similar threats, with <i>M. bendego</i> proposed as CR and <i>M. draco</i> as \"Endangered\" (EN). Over the past two decades, collection efforts and taxonomic descriptions have expanded the diversity of these two genera, with descriptions of 11 species of <i>Listrura</i> and seven of <i>Microcambeva</i> species in that period. To address gaps in genetic data for those taxa, we herein present draft version of whole-genome sequences for two <i>Listrura</i> species - <i>L. nematopteryx</i> and <i>L. boticario</i> - and five <i>Microcambeva</i> species - <i>M. barbata</i>, <i>M. watu</i>, <i>M. jucuensis</i>, <i>M. bendego</i>, and <i>M. ribeirae</i>. These genomic data are critical for future studies on the evolutionary history and systematics of these unique catfishes, contributing to foundational knowledge of their biodiversity.</p>","PeriodicalId":72362,"journal":{"name":"Biodiversity genomes","volume":"2024 ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11801385/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143366894","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
T. J. Colston, Steven T. Cassidy, Kara J.M. Taylor, S. Pirro, Martha Haufiku, Tresia Kavili, Seth J. Eiseb, Carl N. Keiser
We present the complete genome sequences of Stegodyphus bicolor and Stegodyphus dumicola. Illumina sequencing was performed on genetic material from specimens collected in Namibia in March 2023. The reads were assembled using a de novo method followed by a finishing step. The raw and assembled data are publicly available via Genbank.
{"title":"The Complete Genome Sequences of two Species of Stegodyphus Spiders (Araneae: Eresidae)","authors":"T. J. Colston, Steven T. Cassidy, Kara J.M. Taylor, S. Pirro, Martha Haufiku, Tresia Kavili, Seth J. Eiseb, Carl N. Keiser","doi":"10.56179/001c.122353","DOIUrl":"https://doi.org/10.56179/001c.122353","url":null,"abstract":"We present the complete genome sequences of Stegodyphus bicolor and Stegodyphus dumicola. Illumina sequencing was performed on genetic material from specimens collected in Namibia in March 2023. The reads were assembled using a de novo method followed by a finishing step. The raw and assembled data are publicly available via Genbank.","PeriodicalId":72362,"journal":{"name":"Biodiversity genomes","volume":"54 46","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-08-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141929030","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
We present genome sequences of 29 species of ducks from 8 genera. Illumina sequencing was performed on tissue from wild-collected museum specimens. The reads were assembled using a de novo method followed by a finishing step. The raw and assembled data are publicly available via Genbank.
{"title":"The Complete Genome Sequences of 29 Species of Ducks (Anatidae, Anseriformes).","authors":"Emily Griffith, Stacy Pirro","doi":"10.56179/001c.122134","DOIUrl":"10.56179/001c.122134","url":null,"abstract":"<p><p>We present genome sequences of 29 species of ducks from 8 genera. Illumina sequencing was performed on tissue from wild-collected museum specimens. The reads were assembled using a de novo method followed by a finishing step. The raw and assembled data are publicly available via Genbank.</p>","PeriodicalId":72362,"journal":{"name":"Biodiversity genomes","volume":"2024 ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11309123/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141908431","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Species in the genus Hypoplectrus are found primarily in coral reefs in the Caribbean Sea and the Gulf of Mexico, particularly around Florida and the Bahamas. They are a popular choice for hobbyist saltwater aquariums. Members of this genus are simultaneous hermaphrodites, as they have both male and female sexual organs at the same time as an adult. We present the genome sequences of 7 species of Hypoplectrus. Raw read data and assembled genomes are available in Genbank.
{"title":"The Complete Genome Sequences of 7 Hypoplectrus species (Serranidae, Perciformes)","authors":"Arturo Acero, S. Pirro, Ricardo Betancur","doi":"10.56179/001c.117765","DOIUrl":"https://doi.org/10.56179/001c.117765","url":null,"abstract":"Species in the genus Hypoplectrus are found primarily in coral reefs in the Caribbean Sea and the Gulf of Mexico, particularly around Florida and the Bahamas. They are a popular choice for hobbyist saltwater aquariums. Members of this genus are simultaneous hermaphrodites, as they have both male and female sexual organs at the same time as an adult. We present the genome sequences of 7 species of Hypoplectrus. Raw read data and assembled genomes are available in Genbank.","PeriodicalId":72362,"journal":{"name":"Biodiversity genomes","volume":"21 10","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-05-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141105252","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Abhimanyu Lele, Jacob R. Drucker, T. Hains, S. Pirro, John Bates, Elisa Bonaccorso
We present the complete genome sequences of 37 Ecuadorian bird species widespread throughout the tropical Andes.
我们展示了分布于热带安第斯山脉的 37 种厄瓜多尔鸟类的完整基因组序列。
{"title":"The Complete Genome Sequences of 37 Bird Species from the Ecuadorian Andes","authors":"Abhimanyu Lele, Jacob R. Drucker, T. Hains, S. Pirro, John Bates, Elisa Bonaccorso","doi":"10.56179/001c.117756","DOIUrl":"https://doi.org/10.56179/001c.117756","url":null,"abstract":"We present the complete genome sequences of 37 Ecuadorian bird species widespread throughout the tropical Andes.","PeriodicalId":72362,"journal":{"name":"Biodiversity genomes","volume":"17 7","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-05-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141104854","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
We present the whole genome sequence of Ajuga reptans. Illumina paired-end reads were assembled by a de novo method followed by a finishing step. The raw and assembled data are publicly available via GenBank: Sequence Read Archive (SRR24502601) and assembled genome (JAUEKW000000000).
{"title":"The Complete Genome Sequence of Ajuga reptans (Lamiaceae, Lamiales), Bugleweed","authors":"Toby Pirro, S. Pirro","doi":"10.56179/001c.117758","DOIUrl":"https://doi.org/10.56179/001c.117758","url":null,"abstract":"We present the whole genome sequence of Ajuga reptans. Illumina paired-end reads were assembled by a de novo method followed by a finishing step. The raw and assembled data are publicly available via GenBank: Sequence Read Archive (SRR24502601) and assembled genome (JAUEKW000000000).","PeriodicalId":72362,"journal":{"name":"Biodiversity genomes","volume":"72 3","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-05-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141106040","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Louise Bodt, T. Hains, Daryl Coldren, S. Pirro, John Bates, Shannon Hackett
We present complete genome sequences of 23 species of finches from 6 genera.
我们展示了 6 个属 23 种雀鸟的完整基因组序列。
{"title":"The Complete Genome Sequences of 23 Finch Species (Fringillidae, Passeriformes)","authors":"Louise Bodt, T. Hains, Daryl Coldren, S. Pirro, John Bates, Shannon Hackett","doi":"10.56179/001c.117726","DOIUrl":"https://doi.org/10.56179/001c.117726","url":null,"abstract":"We present complete genome sequences of 23 species of finches from 6 genera.","PeriodicalId":72362,"journal":{"name":"Biodiversity genomes","volume":"121 18","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-05-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141115645","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Melissa M. Rincon Sandoval, S. Pirro, Ricardo Betancur
We present genome sequences of 63 species of catfish from the Ariidae family. Illumina sequencing was performed on tissue from wild-collected museum specimens. The reads were assembled using a de novo method followed by a finishing step. The raw and assembled data are publicly available via Genbank.
{"title":"The Draft Genome Sequences of 63 Species of Catfish (Ariidae, Siluriformes)","authors":"Melissa M. Rincon Sandoval, S. Pirro, Ricardo Betancur","doi":"10.56179/001c.117717","DOIUrl":"https://doi.org/10.56179/001c.117717","url":null,"abstract":"We present genome sequences of 63 species of catfish from the Ariidae family. Illumina sequencing was performed on tissue from wild-collected museum specimens. The reads were assembled using a de novo method followed by a finishing step. The raw and assembled data are publicly available via Genbank.","PeriodicalId":72362,"journal":{"name":"Biodiversity genomes","volume":"35 36","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-05-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141117468","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}