Abstract:
:We report the genomic organization and deduced protein sequence of a cephalochordate member of the Otx homeobox gene family (AmphiOtx) and show its probable single-copy state in the genome. We also present molecular phylogenetic analysis indicating that there was single ancestral Otx gene in the first chordates which was duplicated in the vertebrate lineage after it had split from the lineage leading to the cephalochordates. Duplication of a C-terminal protein domain has occurred specifically in the vertebrate lineage, strengthening the case for a single Otx gene in an ancestral chordate whose gene structure has been retained in an extant cephalochordate. Comparative analysis of protein sequences and published gene expression patterns suggest that the ancestral chordate Otx gene had roles in patterning the anterior mesendoderm and central nervous system. These roles were elaborated following Otx gene duplication in vertebrates, accompanied by regulatory and structural divergence, particularly of Otx1 descendant genes.
journal_name
Mol Biol Evoljournal_title
Molecular biology and evolutionauthors
Williams NA,Holland PWdoi
10.1093/oxfordjournals.molbev.a025961subject
Has Abstractpub_date
1998-05-01 00:00:00pages
600-7issue
5eissn
0737-4038issn
1537-1719journal_volume
15pub_type
杂志文章abstract::Proteins evolve not only through point mutations but also by insertion and deletion events, which affect the length of the protein. It is well known that such indel events most frequently occur in surface-exposed loops. However, detailed analysis of indel events in distantly related and fast-evolving proteins is hampe...
journal_title:Molecular biology and evolution
pub_type: 杂志文章
doi:10.1093/molbev/mst157
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abstract::Due to its speed, the distance approach remains the best hope for building phylogenies on very large sets of taxa. Recently (R. Desper and O. Gascuel, J. Comp. Biol. 9:687-705, 2002), we introduced a new "balanced" minimum evolution (BME) principle, based on a branch length estimation scheme of Y. Pauplin (J. Mol. Evo...
journal_title:Molecular biology and evolution
pub_type: 杂志文章
doi:10.1093/molbev/msh049
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journal_title:Molecular biology and evolution
pub_type: 杂志文章
doi:10.1093/oxfordjournals.molbev.a025920
更新日期:1998-03-01 00:00:00
abstract::Here, we sequenced the 5,419,609 bp circular genome of an Enterobacter aerogenes clinical isolate that killed a patient and was resistant to almost all current antibiotics (except gentamicin) commonly used to treat Enterobacterial infections, including colistin. Genomic and phylogenetic analyses explain the discrepanc...
journal_title:Molecular biology and evolution
pub_type: 杂志文章
doi:10.1093/molbev/mss236
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abstract::The Sm family of proteins is closely associated with RNA metabolism throughout all life. These proteins form homomorphic and heteromorphic rings consisting of six or seven subunits with a characteristic central pore, the presence of which is critical for binding U-rich regions of single-stranded RNA. Eubacteria and Ar...
journal_title:Molecular biology and evolution
pub_type: 杂志文章,评审
doi:10.1093/molbev/msn175
更新日期:2008-11-01 00:00:00
abstract::Direct sequencing of polymerase chain reaction products is now an expanding area of plant systematics and evolution. Within angiosperms the rbcL gene has been widely sequenced and used for inferring plant phylogenies at higher taxonomic levels. Unfortunately rbcL does not usually contain enough information to resolve ...
journal_title:Molecular biology and evolution
pub_type: 杂志文章
doi:10.1093/oxfordjournals.molbev.a040157
更新日期:1994-09-01 00:00:00
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journal_title:Molecular biology and evolution
pub_type: 杂志文章
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journal_title:Molecular biology and evolution
pub_type: 杂志文章
doi:10.1093/oxfordjournals.molbev.a040391
更新日期:1986-05-01 00:00:00
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journal_title:Molecular biology and evolution
pub_type: 杂志文章
doi:10.1093/molbev/mss265
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journal_title:Molecular biology and evolution
pub_type: 杂志文章
doi:10.1093/oxfordjournals.molbev.a040307
更新日期:1984-02-01 00:00:00
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journal_title:Molecular biology and evolution
pub_type: 杂志文章
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更新日期:2016-10-01 00:00:00
abstract::The SLiM forward genetic simulation framework has proved to be a powerful and flexible tool for population genetic modeling. However, as a complex piece of software with many features that allow simulating a diverse assortment of evolutionary models, its initial learning curve can be difficult. Here we provide a step-...
journal_title:Molecular biology and evolution
pub_type: 杂志文章
doi:10.1093/molbev/msy237
更新日期:2019-05-01 00:00:00
abstract::Dogs exhibit more phenotypic variation than any other mammal and are affected by a wide variety of genetic diseases. However, the origin and genetic basis of this variation is still poorly understood. We examined the effect of domestication on the dog genome by comparison with its wild ancestor, the gray wolf. We comp...
journal_title:Molecular biology and evolution
pub_type: 杂志文章
doi:10.1093/molbev/msn177
更新日期:2008-11-01 00:00:00
abstract::A recent investigation found evidence that the transition of Arabidopsis thaliana from ancestral self-incompatibility (SI) to full self-compatibility occurred very recently and suggested that this occurred through a selective fixation of a nonfunctional allele (PsiSCR1) at the SCR gene, which determines pollen specifi...
journal_title:Molecular biology and evolution
pub_type: 杂志文章
doi:10.1093/molbev/msl042
更新日期:2006-09-01 00:00:00
abstract::Finding correct species relationships using phylogeny reconstruction based on molecular data is dependent on several empirical and technical factors. These include the choice of DNA sequence from which phylogeny is to be inferred, the establishment of character homology within a sequence alignment, and the phylogeny a...
journal_title:Molecular biology and evolution
pub_type: 杂志文章
doi:10.1093/oxfordjournals.molbev.a026285
更新日期:2000-12-01 00:00:00
abstract::We show how to make appropriate likelihood ratio tests for evolutionary tree models when parameters such as edge (internodes or branches) lengths have nonnegativity constraints. In such cases, under the null model of an edge length being zero, the marginal distribution of this parameter is proven to be a "half-normal"...
journal_title:Molecular biology and evolution
pub_type: 杂志文章
doi:10.1093/oxfordjournals.molbev.a026358
更新日期:2000-05-01 00:00:00
abstract::Accurately inferring the genome-wide landscape of recombination rates in natural populations is a central aim in genomics, as patterns of linkage influence everything from genetic mapping to understanding evolutionary history. Here, we describe recombination landscape estimation using recurrent neural networks (ReLERN...
journal_title:Molecular biology and evolution
pub_type: 杂志文章
doi:10.1093/molbev/msaa038
更新日期:2020-06-01 00:00:00
abstract::We compared the single-nucleotide polymorphisms (SNPs) in humans in 182 housekeeping and 148 tissue-specific genes. SNPs were divided into rare and common polymorphisms based on their frequencies. We found that housekeeping genes tend to be less polymorphic than tissue-specific genes for both rare and common SNPs. Usi...
journal_title:Molecular biology and evolution
pub_type: 杂志文章
doi:10.1093/molbev/msi240
更新日期:2005-12-01 00:00:00
abstract::The guppy sex chromosomes show an extraordinary diversity in divergence across populations and closely related species. In order to understand the dynamics of the guppy Y chromosome, we used linked-read sequencing to assess Y chromosome evolution and diversity across upstream and downstream population pairs that vary ...
journal_title:Molecular biology and evolution
pub_type: 杂志文章
doi:10.1093/molbev/msaa257
更新日期:2021-01-23 00:00:00
abstract::The Mlc1 gene of Drosophila melanogaster encodes two MLC1 isoforms via developmentally regulated alternative pre-mRNA splicing. In larval muscle and tubular and abdominal muscles of adults, all of the six exons are included in the spliced mRNA, whereas, in the fibrillar indirect flight muscle of adult, exon 5 is exclu...
journal_title:Molecular biology and evolution
pub_type: 杂志文章
doi:10.1093/oxfordjournals.molbev.a040043
更新日期:1993-07-01 00:00:00
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journal_title:Molecular biology and evolution
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更新日期:2010-06-01 00:00:00
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journal_title:Molecular biology and evolution
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doi:10.1093/molbev/msq305
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journal_title:Molecular biology and evolution
pub_type: 杂志文章
doi:10.1093/molbev/msj049
更新日期:2006-02-01 00:00:00
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journal_title:Molecular biology and evolution
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更新日期:2007-11-01 00:00:00
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journal_title:Molecular biology and evolution
pub_type: 杂志文章
doi:10.1093/molbev/msn217
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journal_title:Molecular biology and evolution
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doi:10.1093/molbev/mst098
更新日期:2013-08-01 00:00:00
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journal_title:Molecular biology and evolution
pub_type: 杂志文章
doi:10.1093/oxfordjournals.molbev.a040333
更新日期:1985-01-01 00:00:00
abstract::The selective constraints influencing mRNA editing in plant organelles are largely unknown. To investigate these, we compared patterns of editing between monocot and dicot mitochondrial mRNA. On average, 24% of sites that are edited form C to U in one species have been substituted during evolution by a genomic T in th...
journal_title:Molecular biology and evolution
pub_type: 杂志文章
doi:10.1093/oxfordjournals.molbev.a025768
更新日期:1997-03-01 00:00:00
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更新日期:2008-05-01 00:00:00