著者

Yoshiyuki Suzuki

出版者

The Genetics Society of Japan

雑誌

Genes & Genetic Systems (ISSN:13417568)

巻号頁・発行日

vol.85, no.6, pp.359-376, 2010 (Released:2011-03-11)

参考文献数

172

被引用文献数

20 29

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In the study of molecular and phenotypic evolution, understanding the relative importance of random genetic drift and positive selection as the mechanisms for driving divergences between populations and maintaining polymorphisms within populations has been a central issue. A variety of statistical methods has been developed for detecting natural selection operating at the amino acid and nucleotide sequence levels. These methods may be largely classified into those aimed at detecting recurrent and/or recent/ongoing natural selection by utilizing the divergence and/or polymorphism data. Using these methods, pervasive positive selection has been identified for protein-coding and non-coding sequences in the genomic analysis of some organisms. However, many of these methods have been criticized by using computer simulation and real data analysis to produce excessive false-positives and to be sensitive to various disturbing factors. Importantly, some of these methods have been invalidated experimentally. These facts indicate that many of the statistical methods for detecting natural selection are unreliable. In addition, the signals that have been believed as the evidence for fixations of advantageous mutations due to positive selection may also be interpreted as the evidence for fixations of deleterious mutations due to random genetic drift. The genomic diversity data are rapidly accumulating in various organisms, and detection of natural selection may play a critical role for clarifying the relative role of random genetic drift and positive selection in molecular and phenotypic evolution. It is therefore important to develop reliable statistical methods that are unbiased as well as robust against various disturbing factors, for inferring natural selection.

著者

Atsuhiko Suenaga Naoki Sawa Daisuke Ikuma Yuki Oba Akinari Sekine Masayuki Yamanouchi Eiko Hasegawa Hiroki Mizuno Tatsuya Suwabe Kei Kono Yukako Shintani-Domoto Keiichi Kinowaki Kenichi Ohashi Yoshiyuki Suzuki Motoaki Miyazono Tamiko Takemura Yutaka Yamaguchi Yoshifumi Ubara

出版者

The Japanese Society of Internal Medicine

雑誌

Internal Medicine (ISSN:09182918)

巻号頁・発行日

pp.1121-22, (Released:2023-02-01)

参考文献数

8

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We performed 3 kidney biopsies in a 71-year-old man. At the first biopsy, we made the diagnosis of immunoglobulin G4 (IgG4)-related interstitial nephritis characterized by the simultaneous presence of IgG4-positive plasma cells and characteristic fibrosis with a bird's-eye pattern. At the second biopsy, rather than finding fibrosis as a post-inflammatory scar, we noted that steroid treatment had caused the simultaneous disappearance of IgG4-positive plasma cells and fibrosis and had restored the normal tubular structure. The third biopsy showed the recurrence of the disease with inflammatory cells accompanied by fibrosis. These findings suggest that IgG4-positive plasma cells and fibrosis occur simultaneously.

著者

Yoshiyuki Suzuki Yuki Kobayashi Masayuki Horie Keizo Tomonaga

出版者

日本遺伝学会

雑誌

Genes & Genetic Systems (ISSN:13417568)

巻号頁・発行日

vol.89, no.3, pp.143-148, 2014-06-01 (Released:2014-12-04)

参考文献数

46

被引用文献数

1 12

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Endogenous bornavirus-like nucleoprotein (EBLN) elements are nucleotide sequences homologous to the bornavirus N gene that have been identified in animal genomes. EBLN elements are considered to have been generated through reverse transcription of bornavirus N mRNA, mainly with the aid of long interspersed element-1 (LINE-1). The genome of thirteen-lined ground squirrels (Ictidomys tridecemlineatus) contains an EBLN element, itEBLN, which is thought to have been integrated less than 8.5 million years ago (MYA). However, it was also reported that the LINE-1 activity on this lineage was lost 4-5 MYA. Here, molecular evolutionary analyses were conducted to gain insights into the integration time of itEBLN. In a phylogenetic analysis of bornavirus N and itEBLN, using an EBLN element from cape golden moles (Chrysochloris asiatica) (caEBLN) as the outgroup, the integration time of itEBLN appeared to be close to the time of the most recent common ancestor (MRCA) for bornavirus N. From an analysis of genomic sequences for bornavirus strains isolated at different time points, the time of the MRCA for bornavirus N was estimated to be < 0.3 MYA. These results suggest that the integration time of itEBLN was much later than the loss of LINE-1 activity, supporting the non-LINE-1-mediated integration of itEBLN.