cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5524/101029
title: Genomic data of the Northern Carmine bee-eater (<em>Merops nubicus</em>).

description: The Northern Carmine Bee-eater (<em>Merops nubicus nubicus </em>(Gmelin, 1788)) is part of the bee-eater family, Meropidae, and is also known as the Nubian bee-eater. It is a brightly-coloured bird and feeds primarily on bees and other flying insects, such as grasshoppers and locusts. <br>
These data have been produced as part of the Aavian pPhylogenomiscs Pproject. DNA was collected from a female from the Copenhagen Zoo in Denmark, of an animal tended by Mads Bertelsen; now vouchered (137942) in the Natural History Museum of Denmark. We sequenced the genome to a depth of approximately 37X. <br>
The assembled scaffolds of high quality sequences total 1.06Gb, with the contig and scaffold N50 values of 20kb and 47kb respectively. We identified 13,467 protein-coding genes with a mean length of 13kb. <br>
DOI: 10.5524/101030
title: Genomic data of the Brown mesite (<em>Mesitornis unicolor</em>).

description: The Brown Mesite (<em>Mesitornis unicolor</em> (Des Murs, 1845)) is a ground-dwelling bird native to Madagascar, and is one of three species of the Mesitornithidae family. It is a medium-sized terrestial bird that inhabits humid forests and prefers lower elevations - making it a vunerable population.<br>
These data have been produced as part of the Avian Phylogenomics Project. DNA was collected from a vouchered sample (345610) of the Chicago Field Museum (via David Williard) in Chicago from a female caught in Fivondronana de Tolagnaro, Toliara, Madagascar. We sequenced the genome to a depth of approximately 29X. <br>
The assembled scaffolds of high quality sequences total 1.1Gb, with the contig and scaffold N50 values of 18kb and 46kb respectively. We identified 15,371 protein-coding genes with a mean length of 11.4kb. <br>
DOI: 10.5524/101031
title: Genomic data of the Kea (<em>Nestor notabilis</em>).

description: The Kea (<em>Nestor notabilis</em> (Gould, 1856)) is known as the cheeky parrot of New Zealand and is a large bird belonging to the superfamily Strigopoidea. It inhabits the alpine regions of the South Island of New Zealand and is known for its intelligence and curiosity - they can solve logical puzzles and can push and pull things in order to get food. <br>
These data have been produced as part of the Avian Phylogenomics Project. DNA was collected from a male at the Copenhagen Zoo in Denmark, of an animal tended by Mads Bertelsen, with the contig and scaffold N50 values of 16kb and 37kb respectively. We identified 14,074 protein-coding genes with a mean length of 14.4kb. <br>
DOI: 10.5524/101032
title: Genomic data of the Dalmatian pelican (<em>Pelecanus crispus</em>).

description: The Dalmatian Pelican (<em>Pelecanus crispus</em> (Bruch, 1832)) is a large bird, measuring from 160 -183 cm in length, 915 kg in weight and 290351 cm in wingspan. This species breeds from southern Europe to India and China and is found in lakes, rivers, deltas and estuaries. Unlike with the Great White Pelican, The Dalmatian Pelican is not tied to lowland areas and will move and nest in suitable wetlands at a variety of elevations. <br>
These data have been produced as part of the Avian Phylogenomics Project. DNA was collected from a male at the Copenhagen Zoo in Denmark, of an animal tended by Mads Bertelsen, now vouchered (105271) at the Natural History Museum of Denmark. We sequenced the genome to a depth of approximately 34X. <br>
The assembled scaffolds of high quality sequences total 1.17Gb, with the contig and scaffold N50 values of 18kb and 43kb respectively. We identified 14,813 protein-coding genes with a mean length of 11.9kb. <br>
DOI: 10.5524/101033
title: Genomic data of the White-tailed tropicbird (<em>Phaethon lepturus</em>).

description: The White-tailed Tropicbird (<em>Phaethon lepturus ascensionis</em> (Mathews, 1915)) is the smallest of three closely related seabirds in the order Phaethontiformes and can be found in the tropical Atlantic, western Pacific and Indian Oceans. For a small bird, this species can travel far across oceans when not breeding. <br>
These data have been produced as part of the Avian Phylogenomics Project. DNA from collected from a vouchered tissue sample (135885) from the Natural History Museum of Denmark, of a female caught on Ascension Island, South Atlantic. We sequenced the genome to a depth of approximately 39X. <br>
The assembled scaffolds of high quality sequences total 1.16Gb, with the contig and scaffold N50 values of 18kb and 47kb respectively. We identified 14,970 protein-coding genes with a mean length of 12.7kb. <br>
DOI: 10.5524/101034
title: Genomic data of the Great black cormorant (<em>Phalacrocorax carbo</em>).

description: The Great Cormorant (<em>Phalacrocorax carbo sinensis </em>(Blumenbach, 1798)) is a widespread member of the cormorant family and is known by several different names around the world - the Great Black Comorant across the Northern Hemisphere, Black Shag in New Zealand, the Black Cormorant in Australia and the Large Cormorant in India. It is a large black bird that can be distinguished from the Common Shag by its larger size, heavier build and thicker bill. They are mostly silent birds but can produce various guttural noises in their breeding colonies. <br>
These data have been produced as part of the Avian Phylogenomics Project. DNA was collected from a vouchered tissue sample (137943) at the Natural History Museum of Denmark, of a male caught in Gedser, Denmark. We sequenced the genome to a depth of approximately 24X. <br>
The assembled scaffolds of high quality sequences total 1.15Gb, with the contig and scaffold N50 values of 15kb and 48kb respectively. We identified 13,479 protein-coding genes with a mean length of 13.5kb. <br>
DOI: 10.5524/101035
title: Genomic data of the American Flamingo (<em>Phoenicopterus ruber ruber</em>).

description: The Caribbean Flamingo (<em>Phoenicopterus ruber ruber </em>(Linnaeus, 1758)) is a sub-species of, and commonly referred to as the American Flamingo (Phoenicopterus ruber). The Caribbean Flamingo is found generally throughout the Caribbean and is a non-migratory bird (those that do migrate only move between summer and winter breeding grounds). It is a largely social bird that breeds in huge colonies, and is a homeothermic endotherm - an animal that keeps a consistent temperature that is regulated within its body. <br>
These data have been produced as part of the Avian Phylogenomics Project. DNA was collected from a male (leg band GWX) who had lived at the Copenhagen Zoo in Denmark, and was tended to by Mads Bertelsen. We sequenced the 1.24Gb genome to a depth of approximately 33X. <br>
The assembled scaffolds of high quality sequences total 1.14Gb, with the contig and scaffold N50 values of 16kb and 37kb respectively. We identified 14,024 protein-coding genes with a mean length of 11.7kb. <br>
DOI: 10.5524/101036
title: Genomic data of the Great-crested grebe (<em>Podiceps cristatus</em>).

description: The Great Crested Grebe (<em>Podiceps cristatus cristatus </em>(Linnaeus, 1758)) is known for its elaborate mating display and is the largest member of the Grebe family in the Old World. In the 19th century, the species was almost hunted to extinction in the UK for its head plumes, which were used to decorate hats and other female attire. <br>
These data have been produced as part of the Avian Phylogenomics Project. DNA was collected from a vouchered tissue sample (137837) at the Natural History Museum of Denmark, of a male caught in Denmark. We sequenced the genome to a depth of approximately 30X. <br>
The assembled scaffolds of high quality sequences total 1.15Gb, with the contig and scaffold N50 values of 13kb and 30kb respectively. We identified 13,913 protein-coding genes with a mean length of 10.4kb. <br>
DOI: 10.5524/101037
title: Genomic data of the Yellow-throated sandgrouse (<em>Pterocles gutturalis</em>).

description: The Yellow-throated Sandgrouse (<em>Pterocles gutturalis saturatior </em>(Hartert, 1900)) is a member of the Pteroclididae family (ground dwelling birds restricted to treeless, open country) and can be found in many countries in southern and eastern Africa. <br>
These data have been produced as part of the Avian Phylogenomics Project. DNA was collected from a male at the Sharjah Breeding Center in the United Arab Emirates tended by An Pas, of a wild caught animal in Tanzania. We sequenced the genome to a depth of approximately 25X. <br>
The assembled scaffolds of high quality sequences total 1.07Gb, with the contig and scaffold N50 values of 17kb and 49kb respectively. We identified 13,867 protein-coding genes with a mean length of 12.8kb. <br>
DOI: 10.5524/101038
title: Genomic data of the Angola turaco (<em>Tauraco erythrolophus</em>).

description: The Red-crested Turaco (<em>Tauraco erythrolophus </em>(Vieillot, 1819)) is a group of African near-passerines endemic to western Angola. It's call has been described to be somewhat like a jungle monkey. <br>
These data have been produced as part of the Avian Phylogenomics Project. DNA was collected from a male (leg band LDF577) who lived at the Copenhagen Zoo in Denmark, of an animal tended to by Mads Bertelsen. We sequenced the genome to a depth of approximately 30X. <br>
The assembled scaffolds of high quality sequences total 1.17Gb, with the contig and scaffold N50 values of 18kb and 55kb respectively. We identified 15,435 protein-coding genes with a mean length of 13.2kb. <br>
DOI: 10.5524/101039
title: Genomic data of the Barn owl (<em>Tyto alba</em>).

description: The Barn Owl (<em>Tyto alba guttata</em> (Brehm, 1831)) is the most widespread bird of its kind found almost anywhere in the world except in polar and desert regions, and is also referred to as the Common Barn Owl. Contrary to other owls, the Barn Owl does not hoot but produces an ear-shattering scream-like sound. <br>
These data have been produced as part of the Avian Phylogenomics Project . DNA was collected from a female breed in the laboratory of Eric Knudsen at Stanford, USA (tissue sample provided by Alex Goddard). We sequenced the 1.6Gb genome to a depth of approximately 27X. <br>
The assembled scaffolds of high quality sequences total 1.14G, with the contig and scaffold N50 values of 13K and 51K respectively. We identified 13613 protein-coding genes with a mean length of 13.8kb. <br>
DOI: 10.5524/101040
title: Genomic data of the Bald Eagle (<em>Haliaeetus leucocephalus</em>).

description: The Bald Eagle (<em>Haliaeetus leucocephalus</em>(Linnaeus, 1766)) is the official emblem of the United States and it belongs to a group of birds known as fish eagles. They are a large bird with adults weighing upto 4kg.<br>These data have been produced as part of the Avian Phylogenomic Project . DNA was collected from a male bird bred at the NC Raptor Center, Huntersville, North Carolina, USA. The sequencing was conducted at WUSTL. We sequenced the 1.4Gb genome to a depth of approximately 88X with short reads from a series of libraries with various insert sizes (170bp, 500bp, 800bp, 2kb, 5kb, 10kb and 20kb). <br>The assembled scaffolds of high quality sequences total 1.26Gb, with the contig and scaffold N50 values of 10kb and 670kb respectively. We identified 16,526 protein-coding genes with an mean length of 19kb.<br>
DOI: 10.5524/101041
title: Phylogenomic analyses data of the avian phylogenomics project.

description: Determining the evolutionary relationships of modern birds has been one of the biggest challenges in systematic biology. To address this challenge, we assembled or collected the genomes of 48 avian species spanning most orders of birds, including all Neoagnathae and two of the five Palaegnoathae orders, and used the genomes to construct various genome-scale avian phylogenetic trees and perform comparative genomics analyses.<br> Here we release the datasets associated with the phylogenomic analyses, which include genome scale alignments, gene tree files (including binned supergene trees), species tree files (including timetrees), and loci sequence files including nucleotide, amino acid, indels, and transposable elements. We hope that this resource will serve future efforts in phylogenomics, evolutionary biology, and trait analyses.
DOI: 10.5524/101053
title: Chromosome-level genome assembly of Daemonorops jenkinsiana

description: <i>Daemonorops jenkinsiana</i> is a rattan palm in the family Arecaceae, found primarily in the tropics and subtropics of southeastern Asia including southern China. It is one of the most significant material sources for the rattan industry with their stems being harvested for their cores, which is used for everything from canes to furniture. <br>The lack of any reference genome sequences is a major obstacle for basic and applied biology of rattan. Here we provide the chromosome-level genome assembly of <i>D. jenkinsiana</i> using the Illumina, PacBio, and Hi-C sequencing data. A total of ~682 Gb of raw data covering the predicted genome length of ~1.61 Gb with ~ 426× read depth. <br>The de novo genome assembly of ~1.58 Gb was generated with scaffold N50 of ~119 Mb and 53,342 intact predicted protein-coding gene models. BUSCO evaluation demonstrated a genome completeness of 91.3%. <br>These essential data will not only provide a fundamental resource of functional genomics particularly in promoting germplasm utilization for breeding improved rattan material property, but also will serve as a reference genome for performing comparative studies between and among different species.
DOI: 10.5524/101004
title: Genomic data of the Anna's Hummingbird (<em>Calypte anna</em>).

description: The Anna's Hummingbird (<em>Calypte anna</em> (Lesson, 1829)) is a medium-sized hummingbird native to the west coast of North America and is the only North American hummingbird species with a red crown. It belongs to one of the rare groups of vocal learning birds. The bird was named after Anna Massena, Duchess of Rivoli. <br>
These data have been produced as part of the G10K and Avian Phylogenomics Project. DNA was collected from from a female, which was caught in Portland, Oregan, USA by Claudio Mello and Pete Lovell. We sequenced the 1 Gb genome to a depth of approximately 110X with short reads from a series of libraries with various insert sizes (170bp, 500bp, 800bp, 2kb, 5kb, 10kb and 20kb). <br>
The assembled scaffolds of high quality sequences total 1.1Gb, with the contig and scaffold N50 values of 23 kb and 4Mb respectively. We identified 16,000 protein-coding genes with a mean length of 18.5kb.
DOI: 10.5524/101005
title: Genomic data of the Chimney Swift (<em>Chaetura pelagica</em>).

description: The Chimney Swift (<em>Chaetura pelagica</em> (Linnaeus, 1758)) is a bird belonging to the swift family Apodidae. Like their namesake, swifts are among the fastest flying birds. The Chimney swift is often described as a sociable species, seldom seen alone. <br>
These data have been produced as part of the G10K and Avian Phylogenomics Projects. DNA was collected from a vouchered tissue sample (B-21727) from the Louisiana State University Museum, of a female caught in Cameron Parish, Louisiana. We sequenced the genome to a depth of approximately 103X with short reads from a series of libraries with various insert sizes (170bp, 500bp, 800bp, 2kb, 5kb, 10kb and 20kb). <br>
The assembled scaffolds of high quality sequences total 1.1Gb, with the contig and scaffold N50 values of 27 kb and 3.8Mb respectively. We identified 15,373 protein-coding genes with a mean length of 19.8kb.
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DOI: 10.5524/101008
title: Genomic data of the American Crow (<em>Corvus brachyrhynchos</em>).

description: The American Crow (<em>Corvus brachyrhynchos brachyrhynchos</em> (Brehm, 1822)) is a large passerine bird and part of the Corvidae family. It is commonly found throughout North America, and despite being common and widespread, they are highly susceptible to West Nile Virus. <br>
These data have been produced as part of the G10K and Avian Phylogenomics Project. DNA was collected from a female in the Asheboro, North Carolina Zoo, USA, with blood samples provided by Halley Buckanoff of the zoo. We sequenced the 1.26Gb genome to a depth of approximately 80X with short reads from a series of libraries with various insert sizes (170bp, 500bp, 800bp, 2kb, 5kb, 10kb and 20kb). <br>
The assembled scaffolds of high quality sequences total 1.1Gb, with the contig and scaffold N50 values of 24kb and 6.9Mb respectively. We identified 16,562 protein-coding genes with a mean length of 17.9kb.
DOI: 10.5524/101009
title: Genomic data of the Common Cuckoo (<em>Cuculus canorus</em>).

description: The Common Cuckoo (<em>Cuculus canorus canorus</em> (Linnaeus, 1758)), also known as the European Cuckoo, is a widespread summer migrant to Europe and Asia. It is a brood parasite, meaning it lays eggs in other birds' nests; particularly in Dunnock's, Meadow Pipit's, and Eurasian Reed Warbler's nests. <br>
These data have been produced as part of the G10K and Avian Phylogenomics Projects. DNA was collected from a male specimen in Denmark; voucher 137750 in the Natural History Museum of Denmark. We sequenced the genome to a depth of approximately 100X with short reads from a series of libraries with various insert sizes (170bp, 500bp, 800bp, 2kb, 5kb, 10kb and 20kb). <br>
The assembled scaffolds of high quality sequences total 1.15Gb, with the contig and scaffold N50 values of 31kb and 3Mb respectively. We identified 15,889 protein-coding genes with a mean length of 20kb.
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DOI: 10.5524/101010
title: Genomic data of the Golden-collared Manakin (<em>Manacus vitellinus</em>).

description: The Golden-collared Manakin (<em>Manacus vitellinus</em> (Gould, 1843)) belongs to the Pipridae family of suboscine passseriform birds. It is commonly found in Colombia, Costa Rica and Panama. <br> 
These data have been produced as part of the G10K and Avian Phylogenomics Project. DNA was collected from a male obtained in Gamboa, Panama, with the sample obtained by Barney Schlinger of UCLA. We sequenced the genome to a depth of approximately 110X with short reads from a series of libraries with various insert sizes (170bp, 500bp, 800bp, 2kb, 5kb, 10kb and 20kb). <br>
The assembled scaffolds of high quality sequences total 1.12Gb, with the contig and scaffold N50 values of 34kb and 2.5Mb respectively. We identified 15,285 protein-coding genes with a mean length of 18.8kb.
DOI: 10.5524/101014
title: Genomic data of the White throated tinamou (<em>Tinamus guttatus</em>).

description: The White-throated Tinamou (<em>Tinamus guttatus</em> (Pelzeln, 1863)) is a native bird to the Amazon rain forest in Brazil, southern Venezuela, eastern Peru, northern Bolivia, southeastern Colombia and northeastern Ecuador. It belongs to the Tinamidae family, and eats fruit off the ground or low-lying bushes, as well as flower buds, invertebrates, seeds and leaves. <br>
These data have been produced as part of the G10K and Avian Phylogenomics Project. DNA was collected from a vouchered tissue sample (B-42614) from the Louisiana State University Museum, of a female caught in Loreto, Peru.in the Loreto Department, Peru. We sequenced the genome to a depth of approximately 100X with short reads from a series of libraries with various insert sizes (170bp, 500bp, 800bp, 2kb, 5kb, 10kb and 20kb). <br>
The assembled scaffolds of high quality sequences total 1.05Gb, with the contig and scaffold N50 values of 24kb and 242kb respectively. We identified 15,773 protein-coding genes with a mean length of 14.7kb
DOI: 10.5524/101017
title: Genomic data of the Crowned crane (<em>Balearica regulorum gibbericeps</em>).

description: The Grey Crowned Crane (<em>Balearica regulorum gibbericeps</em> (Reichenow, 1892)) belongs to the Gruidae family of birds and can be found in the dry African savannah south of the Sahara, as well as in the wetter areas and grassy flatlands near lakes and rivers in Uganda and Kenya. The Crowned crane performs an interesting display when breeding that involves dancing, bowing, and jumping, as well as a booming call that involves inflation of a red gular sac on its throat. <br>
These data have been produced as part of the Avian Phylogenomics Project. DNA was collected from a male at the Copenhagen Zoo (originally born Givskud Zoo) in Denmark, of an animal tended to by Mads Bertelsen. We sequenced the 1.45Gb genome to a depth of approximately 33X. The assembled scaffolds of high quality sequences total 1.14Gb, with the contig and scaffold N50 values of 18kb and 51kb respectively. We identified 14,173 protein-coding genes with a mean length of 13.8kb.
DOI: 10.5524/101018
title: Genomic data of the Javan rhinoceros hornbill (<em>Buceros rhinoceros silvestris</em>).

description: The Javan Rhinoceros Hornbill (<em>Buceros rhinoceros silvestris</em> (Vieillot, 1816)) is a sub species of the Rhinoceros Hornbill (<em>Buceros rhinoceros</em>), one of the world's largest hornbills that has lived in captivity for over 90 years. It is found it lowland and tropical and sub-tropical mountain rainforests in Borneo, Sumatra, Java, the Malay Peninsula, Singapore and southern Thailand. It is also the state bird of the Malaysian state Sarawak. <br>
These data have been produced as part of the Avian Phylogenomics Project. DNA was collected from a male who had lived at the Copenhagen Zoo (originally born wild) in Denmark, of an animal tended to by Mads Bertelsen. We sequenced the genome to a depth of approximately 35X. <br>
The assembled scaffolds of high quality sequences total 1.08Gb, with the contig and scaffold N50 values of 14kb and 51kb respectively. We identified 13,873 protein-coding genes with a mean length of 13.5kb.
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DOI: 10.5524/101021
title: Genomic data of the Turkey Vulture (<em>Cathartes aura</em>).

description: The Turkey Vulture (<em>Cathartes aura aura</em> (Linnaeus, 1758)), also known as the Turkey Buzzard in North America, is the most widespread vulture species. It lives in a range of open and semi-open areas, such as shrublands, sub-tropical forests and pastures. The Turkey Vulture is a scavanger, feeding exclusively on carrion - it flies low using its keen eye and sense of smell to detect the gases produced during the decay of dead animals. <br>
These data have been produced as part of the Avian Phylogenomics Project. DNA was collected from a female in the Carolina Raptor Center, in Huntersville, North Carolina, USA (originally wild caught in North Carolina), with blood samples provided by Dave Scott of the Center. We sequenced the genome to a depth of approximately 25X. <br>
The assembled scaffolds of high quality sequences total 1.17Gb, with the contig and scaffold N50 values of 12kb and 35kb respectively. We identified 13,534 protein-coding genes with a mean length of 10.8kb. <br>
DOI: 10.5524/101022
title: Genomic data of the Macqueen's Bustard (<em>Chlamydotis macqueenii</em>).

description: The Macqueen's Bustard (<em>Chlamydotis macqueenii </em>(Gray, 1832)) is a large bird that breeds in southwest Asia in deserts and similarly arid sandy areas. It has recently split as a separate species from the Houbara Bustard of the Canary Islands and Africa, and one difference is that the MacQueen's Bustard has a tendancy to wander compared with the Houbara. <br>
These data have been produced as part of the Avian Phylogenomics Project. DNA was collected from a male in the Dubai Falcon Hospital (originally wild caught), with blood samples provided by Tom Bailey of the Hospital. We sequenced the genome to a depth of approximately 27X. <br>
The assembled scaffolds of high quality sequences total 1.09Gb, with the contig and scaffold N50 values of 18kb and 45kb respectively. We identified 13,582 protein-coding genes with a mean length of 12.9kb. <br>