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Immunogenetics

, Volume 61, Issue 1, pp 55–70 | Cite as

Non-coding RNAs revealed during identification of genes involved in chicken immune responses

  • Marie-Laure Endale Ahanda
  • Thomas Ruby
  • Håkan Wittzell
  • Bertrand Bed’Hom
  • Anne-Marie Chaussé
  • Veronique Morin
  • Anne Oudin
  • Catherine Chevalier
  • John R. Young
  • Rima Zoorob
Original Paper

Abstract

Recent large-scale cDNA cloning studies have shown that a significant proportion of the transcripts expressed from vertebrate genomes do not appear to encode protein. Moreover, it was reported in mammals (human and mice) that these non-coding transcripts are expressed and regulated by mechanisms similar to those involved in the control of protein-coding genes. We have produced a collection of cDNA sequences from immunologically active tissues with the aim of discovering chicken genes involved in immune mechanisms, and we decided to explore the non-coding component of these immune-related libraries. After finding known non-coding RNAs (miRNA, snRNA, snoRNA), we identified new putative mRNA-like non-coding RNAs. We characterised their expression profiles in immune-related samples. Some of them showed changes in expression following viral infections. As they exhibit patterns of expression that parallel the behaviour of protein-coding RNAs in immune tissues, our study suggests that they could play an active role in the immune response.

Keywords

Non-coding RNAs Microarray Immune response Chicken 

Notes

Acknowledgements

This research was supported by funds from the European Commission to RZ (KA5-QLRT-CT99-1591 Chicken IMAGE). T.R. was supported by grants from the SABRE Integrated European project (FOOD-CT-2006-016250), and M.E.A. by grants from the French Ministere de la Recherche. We thank Dr F. Dautry for helpful discussion.

Supplementary material

251_2008_337_MOESM1_ESM.xls (52 kb)
Additional data file 1 Table of putative ncRNAs associated data including localisation, comparison with previous study and expression information (XLS 52 kb)
251_2008_337_Fig1_ESM.gif (5.6 mb)
Additional data file 2

Dendrograms of the 15 clusters obtained by k-mean clustering of both coding and non-coding transcripts based on expression levels from immune-related tissues (GIF 5841 kb)

251_2008_337_Fig1_ESM.eps (16 mb)
High resolution image file (EPS 16775 kb)
251_2008_337_MOESM4_ESM.txt (135 kb)
Additional data file 3 Descriptions of the transcripts included in each expression cluster of the immune-related tissues analysis (TXT 138 kb)
251_2008_337_Fig2_ESM.gif (1.9 mb)
Additional data file 4

Dendrograms of the 15 clusters obtained by k-mean clustering of both coding and non-coding transcripts based on expression levels from the IBDV infection (GIF 2032 kb)

251_2008_337_Fig2_ESM.eps (7.6 mb)
High resolution image file (EPS 7938 kb)
251_2008_337_MOESM7_ESM.txt (112 kb)
Additional data file 5 Descriptions of the transcripts included in each expression cluster of the IBDV infection analysis (TXT 114 kb)

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Copyright information

© Springer-Verlag 2008

Authors and Affiliations

  • Marie-Laure Endale Ahanda
    • 1
  • Thomas Ruby
    • 1
  • Håkan Wittzell
    • 2
  • Bertrand Bed’Hom
    • 3
  • Anne-Marie Chaussé
    • 4
  • Veronique Morin
    • 1
  • Anne Oudin
    • 1
  • Catherine Chevalier
    • 5
  • John R. Young
    • 6
  • Rima Zoorob
    • 1
  1. 1.CNRS, FRE2937VillejuifFrance
  2. 2.Botanical museum (LD)Lund UniversityLundSweden
  3. 3.INRA/AgroParisTech, UMR1236, Génétique et Diversité AnimalesJouy-en-JosasFrance
  4. 4.INRA, UR1282 Infectiologie Animale et Santé PubliqueNouzillyFrance
  5. 5.INSERM IFR026, Plateforme Transcriptome Ouest GénopoleNantesFrance
  6. 6.Institute for Animal Health, ComptonBerkshireUK

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