First isolation of tandemly repeated DNA sequences in New World vultures and phylogenetic implications

Keyser, C.; Pfitzinger, H.; Montagnon, Daniel; Schlee, Marsha A.; Ludes, Bertrand; Mangin, P

doi:10.1139/g96-005

Cited by 8 publications

(4 citation statements)

References 16 publications

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“…Many of these sequences contain microsatellites and other repetitive elements (LINEs, retroviral LTRs, and satellites) known in chicken. We also found satellite sequences previously detected by Keyser et al [51] that only occur in New World vultures.…”

Section: Resultssupporting

confidence: 86%

“…Another piece of evidence in support of those ideas comes from the fact that the chicken and condor genomes demonstrate a high degree of sequence homology and share many common avian repetitive elements including LINEs, retroviral LTRs, and satellites. However, the presence of satellite sequences specific to New World vultures [51] suggests that some distinctive genomic features have emerged in the cathartids over almost the 100-million years of evolution in this avian lineage. We hypothesize that the specific satellite sequences inherent to the Cathartidae may represent unique genomic signatures that could help resolve the long disputed taxonomic position of this avian family (e.g., [55,57,58]).…”

Section: Discussionmentioning

confidence: 99%

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The value of avian genomics to the conservation of wildlife

et al. 2009

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BackgroundGenomic studies in non-domestic avian models, such as the California condor and white-throated sparrow, can lead to more comprehensive conservation plans and provide clues for understanding mechanisms affecting genetic variation, adaptation and evolution.Developing genomic tools and resources including genomic libraries and a genetic map of the California condor is a prerequisite for identification of candidate loci for a heritable embryonic lethal condition. The white-throated sparrow exhibits a stable genetic polymorphism (i.e. chromosomal rearrangements) associated with variation in morphology, physiology, and behavior (e.g., aggression, social behavior, sexual behavior, parental care).In this paper we outline the utility of these species as well as report on recent advances in the study of their genomes.ResultsGenotyping of the condor resource population at 17 microsatellite loci provided a better assessment of the current population's genetic variation. Specific New World vulture repeats were found in the condor genome. Using condor BAC library and clones, chicken-condor comparative maps were generated. A condor fibroblast cell line transcriptome was characterized using the 454 sequencing technology.Our karyotypic analyses of the sparrow in combination with other studies indicate that the rearrangements in both chromosomes 2m and 3a are complex and likely involve multiple inversions, interchromosomal linkage, and pleiotropy. At least a portion of the rearrangement in chromosome 2m existed in the common ancestor of the four North American species of Zonotrichia, but not in the one South American species, and that the 2m form, originally thought to be the derived condition, might actually be the ancestral one.ConclusionMining and characterization of candidate loci in the California condor using molecular genetic and genomic techniques as well as linkage and comparative genomic mapping will eventually enable the identification of carriers of the chondrodystrophy allele, resulting in improved genetic management of this disease.In the white-throated sparrow, genomic studies, combined with ecological data, will help elucidate the basis of genic selection in a natural population. Morphs of the sparrow provide us with a unique opportunity to study intraspecific genomic differences, which have resulted from two separate yet linked evolutionary trajectories. Such results can transform our understanding of evolutionary and conservation biology.

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Section: Resultssupporting

confidence: 86%

Section: Discussionmentioning

confidence: 99%

The value of avian genomics to the conservation of wildlife

et al. 2009

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“…Phylogeny based on tandemly repetitive sequences has been demonstrated for many species such as vultures (Keyser et al, 1996), passerine birds (Quinn et al, 1992), parrots (Madsen et al, 1992), and cetacenas (Gretarsdottir and Arnason, 1992). In the cetaceans, the evolution of the highly repetitive DNA was congruent with and tightly correlated to the accepted phylogeny based on morphologic characters.…”

Section: Discussionmentioning

confidence: 90%

Characterization of a Highly Repetitive Sequence Conserved Among the North American Morone Species

et al. 1999

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: A highly repetitive DNA sequence family from the genome of the North American Morone has been cloned and characterized. This family, first identified as a HindIII repetitive element, is composed of repeat units that range from 285 to 288 bp in length and comprise approximately 5.5% of the genome. The copy number of the repeat was estimated to be 1.85 x 10(5) per haploid genome set. Data from Southern blot analyses demonstrated that the HindIII repetitive element was tandemly organized. Sequence analysis of six cloned repeat monomers from each of the four North American Morone species, M. saxatilis, M. chrysops, M. americana, and M. mississippiensis, revealed a high degree of conservation of the monomeric unit. The intraspecific sequence variation ranged from 3.2% to 5.4%. A similar level of variation was detected between cloned monomers from the same individual, suggesting that most of the intraspecies variation may be due to variation among copies of the repeat. The interspecific sequence variation ranged from less than 4.6% between M. americana and M. mississippiensis to approximately 16% between the other Morone species pairs. Phylogenetic analysis of the repetitive element nucleotide sequences indicated that M. americana and M. mississippiensis were more closely related to each other than to any other pairs of Morone species. In addition, we reconstructed the Morone phylogeny using 22 previously described morphologic characters. Congruent relationships were obtained between both sets of data. The data suggest that the genus Morone is composed of two sets of sister taxa, M. saxatilis:M. chrysops and M. americana:M. mississippiensis.

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“…According to those data, New World vultures are more closely related to storks and allies (Ciconiidae) than to Old World vultures (Avise et al, 1994). Hence, all American vultures (Cathartidae), previously considered as members of the order Falconiformes, are now recognized as Ciconiiformes (Keyser et al, 1996;Raudsepp et al, 2002). Detailed comparison of mitochondrial cytochrome b among Old World vultures identifi ed two major independent lineages, one Aegypiinae core group including the genus Gyps and several sister groups (Aegypius , Torgos and Sarcogyps) and the other line comprising the Gypaetus-Neophron vultures (Seibold and Helbig, 1995;Wink, 1995;Lerner and Mindell, 2005).…”

mentioning

confidence: 99%

Extensive gross genomic rearrangements between chicken and Old World vultures (Falconiformes: Accipitridae)

Nanda

Karl²,

Volobouev³

et al. 2006

Cytogenet Genome Res

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The karyotypes of most birds consist of a small number of macrochromosomes and numerous microchromosomes. Intriguingly, most accipitrids which include hawks, eagles, kites, and Old World vultures (Falconiformes) show a sharp contrast to this basic avian karyotype. They exhibit strikingly few microchromosomes and appear to have been drastically restructured during evolution. Chromosome paints specific to the chicken (GGA) macrochromosomes 1–10 were hybridized to metaphase spreads of three species of Old World vultures (Gyps rueppelli, Gyps fulvus, Gypaetus barbatus). Paints of GGA chromosomes 6–10 hybridize only to single chromosomes or large chromosome segments, illustrating the existence of high chromosome homology. In contrast, paints of the large macrochromosomes 1–5 show split hybridization signals on the chromosomes of the accipitrids, disclosing excessive chromosome rearrangements which is in clear contrast to the high degree of chromosome conservation substantiated from comparative chromosome painting in other birds. Furthermore, the GGA chromosome paint hybridization patterns reveal remarkable interchromosomal conservation among the two species of the genus Gyps.

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First isolation of tandemly repeated DNA sequences in New World vultures and phylogenetic implications

Cited by 8 publications

References 16 publications

The value of avian genomics to the conservation of wildlife

The value of avian genomics to the conservation of wildlife

Characterization of a Highly Repetitive Sequence Conserved Among the North American Morone Species

Extensive gross genomic rearrangements between chicken and Old World vultures (Falconiformes: Accipitridae)

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