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Your search keyword '"Boissinot Stephane"' showing total 117 results
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117 results on '"Boissinot Stephane"'

1. Developing a community-based genetic nomenclature for anole lizards

Author

Kusumi Kenro, Kulathinal Rob J, Abzhanov Arhat, Boissinot Stephane, Crawford Nicholas G, Faircloth Brant C, Glenn Travis C, Janes Daniel E, Losos Jonathan B, Menke Douglas B, Poe Steven, Sanger Thomas J, Schneider Christopher J, Stapley Jessica, Wade Juli, and Wilson-Rawls Jeanne

Subjects
Biotechnology, TP248.13-248.65, Genetics, QH426-470
Abstract

Abstract Background Comparative studies of amniotes have been hindered by a dearth of reptilian molecular sequences. With the genomic assembly of the green anole, Anolis carolinensis available, non-avian reptilian genes can now be compared to mammalian, avian, and amphibian homologs. Furthermore, with more than 350 extant species in the genus Anolis, anoles are an unparalleled example of tetrapod genetic diversity and divergence. As an important ecological, genetic and now genomic reference, it is imperative to develop a standardized Anolis gene nomenclature alongside associated vocabularies and other useful metrics. Results Here we report the formation of the Anolis Gene Nomenclature Committee (AGNC) and propose a standardized evolutionary characterization code that will help researchers to define gene orthology and paralogy with tetrapod homologs, provide a system for naming novel genes in Anolis and other reptiles, furnish abbreviations to facilitate comparative studies among the Anolis species and related iguanid squamates, and classify the geographical origins of Anolis subpopulations. Conclusions This report has been generated in close consultation with members of the Anolis and genomic research communities, and using public database resources including NCBI and Ensembl. Updates will continue to be regularly posted to new research community websites such as lizardbase. We anticipate that this standardized gene nomenclature will facilitate the accessibility of reptilian sequences for comparative studies among tetrapods and will further serve as a template for other communities in their sequencing and annotation initiatives.

Published
2011
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30. The genome of the green anole lizard and a comparative analysis with birds and mammals

Author

Alföldi, Jessica, Di Palma, Federica, Grabherr, Manfred, Williams, Christina, Kong, Lesheng, Mauceli, Evan, Russell, Pamela, Lowe, Craig B., Glor, Richard E., Jaffe, Jacob D., Ray, David A., Boissinot, Stephane, Shedlock, Andrew M., Botka, Christopher, Castoe, Todd A., Colbourne, John K., Fujita, Matthew K., Moreno, Ricardo Godinez, ten Hallers, Boudewijn F., Haussler, David, Heger, Andreas, Heiman, David, Janes, Daniel E., Johnson, Jeremy, de Jong, Pieter J., Koriabine, Maxim Y., Lara, Marcia, Novick, Peter A., Organ, Chris L., Peach, Sally E., Poe, Steven, Pollock, David D., de Queiroz, Kevin, Sanger, Thomas, Searle, Steve, Smith, Jeremy D., Smith, Zachary, Swofford, Ross, Turner-Maier, Jason, Wade, Juli, Young, Sarah, Zadissa, Amonida, Edwards, Scott V., Glenn, Travis C., Schneider, Christopher J., Losos, Jonathan B., Lander, Eric S., Breen, Matthew, Ponting, Chris P., and Lindblad-Toh, Kerstin

Published
2011
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31. Discordant phylogeographic patterns between the Y chromosome and mitochondrial DNA in the house mouse: selection on the Y chromosome?

Author

Boissinot, Stephane and Boursot, Pierre

Subjects
Y chromosome -- Research, Mitochondrial DNA -- Research, Biological sciences
Abstract

We have compared patterns of geographic variation and molecular divergence of mitochondrial DNA (mtDNA) and Y chromosome over the range of the different subspecies of Mus musculus. MtDNA was typed for 305 nucleotides in the control region, the Y chromosome for 834 base pairs (bp) in Zfy introns and 242 bp in Sry, a Zfy2 18-bp deletion, and two microsatellites. Apparent discrepancies exist between the distributions of the lineages of mtDNA and of the two major Y-chromosome lineages thus defined: some subspecies share the same mtDNA lineage but have different Y-chromosome lineages or vice versa. One microsatellite reveals a geographically clustered variation inside the distribution of each Y-chromosome lineage, showing that new Y-chromosome variants can rapidly spread locally. The two major Y-chromosome lineages have a divergence time only about one fourth of that between mtDNA lineages. Although this recent coalescence of the Y chromosomes between subspecies could partly be due to a lower ancestral polymorphism of the Y chromosome, it suggests that secondary introgression after the radiation of the subspecies might have occurred. There is evidence that the differentiation of the Y-chromosome lineages contributes to partial reproductive isolation between subspecies, and patterns of molecular evolution suggest that selection has played a role in the rapid spread across subspecies.

Published
1997

43. The genomic distribution of L1 elements: the role of insertion bias and natural selection

Author

Graham, Todd and Boissinot, Stephane

Subjects
Genetic aspects, Research, Retrotransposons -- Research -- Genetic aspects, Natural selection -- Genetic aspects -- Research, Human genome -- Research -- Genetic aspects
Abstract

LINE-1 (L1) retrotransposons constitute the most successful family of retroelements in mammals and account for as much as 20% of mammalian DNA. L1 elements can be found in all genomic [...]

Published
2006

45. Molecular evolution and tempo of amplification of human LINE-1 retrotransposons since the origin of primates

Author

Khan, Hameed, Smit, Arian, and Boissinot, Stephane

Subjects
Retrotransposons -- Research, Primates -- Genetic aspects, Gene amplification -- Research, Health
Abstract

The evolution of the families of LINE-1 (L1) retrotransposons that have amplified in the human linage since the origin of primates is investigated. Two phases are identified, in the evolution of L1 while it was found that from ~70 million years ago (Mya) until ~40 Mya, three distinct LI lineages were simultaneously active in the genome of ancestral primates.

Published
2006

46. The insertional history of an active family of L1 retrotransposons in humans

Author

Boissinot, Stephane, Entezam, Ali, Young, Lynn, Munson, Peter J., and Furano, Anthony V.

Subjects
Human genetics -- Research, Retrotransposons -- Research, Health
Abstract

A non-biased method is used to clone Ta-1 retrotransposon-containing loci from representative of four ethnic populations. 227 distinct Ta-1 loci are obtained and an additional 67 loci in the human genome database are identified.

Published
2004

47. The genome of the green anole lizard and a comparative analysis with birds and mammals

Author

Grabherr, Manfred, Fujita, Matthew K., Russell, Pamela, Jaffe, Jacob D., Mauceli, Evan, Pollock, David D., Novick, Peter A., Lowe, Craig B., Koriabine, Maxim Y., Haussler, David, ten Hallers, Boudewijn F., Shedlock, Andrew M., Peach, Sally E., Moreno, Ricardo Godinez, Colbourne, John K., Glor, Richard E., Boissinot, Stephane, Poe, Steven, Kong, Lesheng, Lara, Marcia, Janes, Daniel E., Di Palma, Federica, Castoe, Todd A., Williams, Christina, Heiman, David, Ray, David A., Alföldi, Jessica, Botka, Christopher, Johnson, Jeremy, Heger, Andreas, de Jong, Pieter J., and Organ, Chris L.

Abstract

The evolution of the amniotic egg was one of the great evolutionary innovations in the history of life, freeing vertebrates from an obligatory connection to water and thus permitting the conquest of terrestrial environments1. Among amniotes, genome sequences are available for mammals2 and birds3–5, but not for non-avian reptiles. Here we report the genome sequence of the North American green anole lizard, Anolis carolinensis. We find that A. carolinensis microchromosomes are highly syntenic with chicken microchromosomes, yet do not exhibit the high GC and low repeat content that are characteristic of avian microchromosomes3. Also, A. carolinensis mobile elements are very young and diverse – more so than in any other sequenced amniote genome. This lizard genome’s GC content is also unusual in its homogeneity, unlike the regionally variable GC content found in mammals and birds6. We describe and assign sequence to the previously unknown A. carolinensis X chromosome. Comparative gene analysis shows that amniote egg proteins have evolved significantly more rapidly than other proteins. An anole phylogeny resolves basal branches to illuminate the history of their repeated adaptive radiations.

Published
2011
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48. The genome of the green anole lizard and a comparative analysis with birds and mammals

Author

Alfoeldi, Jessica, Di Palma, Federica, Grabherr, Manfred, Williams, Christina, Kong, Lesheng, Mauceli, Evan, Russell, Pamela, Lowe, Craig B., Glor, Richard E., Jaffe, Jacob D., Ray, David A., Boissinot, Stephane, Shedlock, Andrew M., Botka, Christopher, Castoe, Todd A., Colbourne, John K., Fujita, Matthew K., Moreno, Ricardo Godinez, ten Hallers, Boudewijn F., Haussler, David, Heger, Andreas, Heiman, David, Janes, Daniel E., Johnson, Jeremy, de Jong, Pieter J., Koriabine, Maxim Y., Lara, Marcia, Novick, Peter A., Organ, Chris L., Peach, Sally E., Poe, Steven, Pollock, David D., de Queiroz, Kevin, Sanger, Thomas, Searle, Steve, Smith, Jeremy D., Smith, Zachary, Swofford, Ross, Turner-Maier, Jason, Wade, Juli, Young, Sarah, Zadissa, Amonida, Edwards, Scott V., Glenn, Travis C., Schneider, Christopher J., Losos, Jonathan B., Lander, Eric S., Breen, Matthew, Ponting, Chris P., Lindblad-Toh, Kerstin, Alfoeldi, Jessica, Di Palma, Federica, Grabherr, Manfred, Williams, Christina, Kong, Lesheng, Mauceli, Evan, Russell, Pamela, Lowe, Craig B., Glor, Richard E., Jaffe, Jacob D., Ray, David A., Boissinot, Stephane, Shedlock, Andrew M., Botka, Christopher, Castoe, Todd A., Colbourne, John K., Fujita, Matthew K., Moreno, Ricardo Godinez, ten Hallers, Boudewijn F., Haussler, David, Heger, Andreas, Heiman, David, Janes, Daniel E., Johnson, Jeremy, de Jong, Pieter J., Koriabine, Maxim Y., Lara, Marcia, Novick, Peter A., Organ, Chris L., Peach, Sally E., Poe, Steven, Pollock, David D., de Queiroz, Kevin, Sanger, Thomas, Searle, Steve, Smith, Jeremy D., Smith, Zachary, Swofford, Ross, Turner-Maier, Jason, Wade, Juli, Young, Sarah, Zadissa, Amonida, Edwards, Scott V., Glenn, Travis C., Schneider, Christopher J., Losos, Jonathan B., Lander, Eric S., Breen, Matthew, Ponting, Chris P., and Lindblad-Toh, Kerstin

Abstract

The evolution of the amniotic egg was one of the great evolutionary innovations in the history of life, freeing vertebrates from an obligatory connection to water and thus permitting the conquest of terrestrial environments(1). Among amniotes, genome sequences are available for mammals and birds(2-4), but not for non-avian reptiles. Here we report the genome sequence of the North American green anole lizard, Anolis carolinensis. We find that A. carolinensis microchromosomes are highly syntenic with chicken microchromosomes, yet do not exhibit the high GC and low repeat content that are characteristic of avian microchromosomes(2). Also, A. carolinensis mobile elements are very young and diverse-more so than in any other sequenced amniote genome. The GC content of this lizard genome is also unusual in its homogeneity, unlike the regionally variable GC content found in mammals and birds(5). We describe and assign sequence to the previously unknown A. carolinensis X chromosome. Comparative gene analysis shows that amniote egg proteins have evolved significantly more rapidly than other proteins. An anole phylogeny resolves basal branches to illuminate the history of their repeated adaptive radiations.

Published
2011
Full Text
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