眼の進化と生物多様性を研究しています。
The eye is one of the most elaborate organs in animals and the study of its evolution is of particular interest. It has been difficult to understand how this complex organ arose. Molluscs provide a good example of the application of evolutionary genomics, as all eye types have evolved in one lineage.
Tag: #Evolution #Eye #Molluscs
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Evolution.
Possible new human ancestor found in Siberia
WASHINGTON (Reuters) – Genetic material pulled from a pinky finger bone found in a Siberian cave shows a new and unknown type of pre-human lived alongside modern humans and Neanderthals, scientists reported on Wednesday.
The creature, nicknamed “Woman X” for the time being, could have lived as recently as 30,000 years ago and appears only distantly related to modern humans or Neanderthals, the researchers reported. (Via Yahoo News)
Ortholog DB
Orthologyは遺伝子の進化を見る上で非常に重要な概念ですが、近年ゲノム解読生物が増えるにつれOrthologyの大規模解析をしたDataBaseがいくつかでてきています。As of 20 Feb. 2008
Algorithm: Reciprocal smallest distance algorithm
Genomes: ENSEMBL次第
Orthologous pairs: -
Raw data download: Available
Comments: DBというよりもJAVA appletを使ったバイオインフォマティクスツール。Gain/Lossなど簡単な進化解析も可能。高機能だが重い。
Algorithm: Reciprocal smallest distance algorithm
Genomes: 35 genomes
Orthologous pairs: -
Raw data download: Available
Comments: 2種間のOrthology比較が見やすい。
Algorithm: Reciprocal smallest distance algorithm
Genomes: 220 genomes
Orthologous pairs: 183,935,606 orthologous pairs
Raw data download: Available
Comments: 信用できるのか？というほどゲノム数が多い。
Algorithm: Markov Clustering algorithm, Reciprocal smallest distance algorithm
Genomes: 55 genomes
Orthologous group: 70,388 orthologous pairs
Raw data download: Available
Comments: Inaranoidと同じくらいに信頼性が高いとされている。
おまけ
Assessing performance of orthology detection strategies applied to eukaryotic genomes.
Chen et al.
http://www.plosone.org/article/info:doi/10.1371/journal.pone.0000383
