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Laboratory science
Gene expression profile of fibrovascular membranes from patients with proliferative diabetic retinopathy
  1. Shigeo Yoshida1,2,
  2. Atsushi Ogura3,
  3. Keijiro Ishikawa1,
  4. Ayako Yoshida1,
  5. Richiro Kohno1,
  6. Yoko Yamaji1,
  7. Kazuho Ikeo4,
  8. Takashi Gojobori4,
  9. Toshihiro Kono2,
  10. Tatsuro Ishibashi1
  1. 1Department of Ophthalmology, Kyushu University Graduate School of Medical Sciences, Fukuoka, Japan
  2. 2Department of Ophthalmology, Fukuoka University Chikushi Hospital, Chikusino-shi, Fukuoka, Japan
  3. 3Ochadai Academic Production, Ochanomizu University, Tokyo, Japan
  4. 4Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Mishima, Japan
  1. Correspondence to Dr Shigeo Yoshida, Department of Ophthalmology, Kyushu University Graduate School of Medical Sciences, Fukuoka, 812-8582, Japan; yosida{at}eye.med.kyushu-u.ac.jp

Abstract

Background/aims The purpose of this study was to generate a profile of genes expressed in preretinal fibrovascular membranes (FVMs) from patients with proliferative diabetic retinopathy.

Methods A PCR-amplified complementary DNA (cDNA) library was constructed using the RNAs isolated from FVMs obtained during vitrectomy. The sequence from the 5′ end was obtained for randomly selected clones and used to generate expressed sequence tags (ESTs). Functional annotation was retrieved from Ensemble database and analysed by FatiGO. The web-based VisANT software was used to identify the molecular networks within the FVMs.

Results A total of 2816 ESTs were assembled in 625 non-redundant clusters. Among these, 515 matched the human cDNA database. The 515 clusters were subdivided by functional subsets of genes related to ribosomal activity, oxidative phosphorylation, focal adhesion, cell adhesion and other functions. Querying against the VisANT database yielded 3175 possible physical relationships to other genes/proteins, which included an additional 2480 genes that were not detected in the FVM library.

Conclusions The cDNA library constructed from human FVMs will be a valuable source of information. It should facilitate a wide range of studies that can establish the molecular mechanisms underlying the development of FVMs.

  • Vitreous
  • retina
  • wound healing
  • angiogenesis

https://doi.org/10.1136/bjo.2009.167072

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    Footnotes

    • Funding This work was supported in part by grants from the Ministry of Education, Science, Sports and Culture, Japan (TI and SY), and the Japan Diabetes Foundation (SY).

    • Competing interests None.

    • Patient consent Obtained.

    • Ethics approval This study was approved by the Ethics Committee of the Kyushu University Hospital, and the FVM specimens were handled in accordance with the Declaration of Helsinki.

    • Provenance and peer review Not commissioned; externally peer reviewed.