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Derivation of species-specific hybridization-like knowledge out of cross-species hybridization results
Year:
2006
Source of publication :
BMC Genomics
Authors :
Bar-Eyal, Meira
;
.
Bar-Or, Carmiya
;
.
Gal, Tali Z.
;
.
Kapulnik, Yoram
;
.
Koltai, Hinanit
;
.
Volume :
7
Co-Authors:
Bar-Or, C., Department of Ornamental Horticulture, ARO Volcani Centre, Bet Dagan, Israel, The Robert H. Smith Institute of Plant Sciences and Genetics in Agriculture, Faculty of Agriculture of the Hebrew University of Jerusalem, Rehovot, Israel
Bar-Eyal, M., Department of Nematology, ARO Volcani Center, Bet Dagan, Israel
Gal, T.Z., Department of Ornamental Horticulture, ARO Volcani Centre, Bet Dagan, Israel
Kapulnik, Y., Department of Agronomy and Natural Resources, ARO Volcani Center, Bet Dagan, Israel
Czosnek, H., The Robert H. Smith Institute of Plant Sciences and Genetics in Agriculture, Faculty of Agriculture of the Hebrew University of Jerusalem, Rehovot, Israel
Koltai, H., Department of Ornamental Horticulture, ARO Volcani Centre, Bet Dagan, Israel
Facilitators :
From page:
To page:
(
Total pages:
1
)
Abstract:
Background: One of the approaches for conducting genomics research in organisms without extant microarray platforms is to profile their expression patterns by using Cross-Species Hybridization (CSH). Several different studies using spotted microarray and CSH produced contradicting conclusions in the ability of CSH to reflect biological processes described by species-specific hybridization (SSH). Results: We used a tomato-spotted cDNA microarray to examine the ability of CSH to reflect SSH data. Potato RNA was hybridized to spotted cDNA tomato and potato microarrays to generate CSH and SSH data, respectively. Difficulties arose in obtaining transcriptomic data from CSH that reflected those obtained from SSH. Nevertheless, once the data was filtered for those corresponding to matching probe sets, by restricting proper cutoffs of probe homology, the CSH transcriptome data showed improved reflection of those of the SSH. Conclusions: This study evaluated the relative performance of CSH compared to SSH, and proposes methods to ensure that CSH closely reflects the biological process analyzed by SSH. © 2006 Bar-Or et al; licensee BioMed Central Ltd.
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More details
DOI :
10.1186/1471-2164-7-110
Article number:
110
Affiliations:
Database:
Scopus
Publication Type:
article
;
.
Language:
English
Editors' remarks:
ID:
30483
Last updated date:
02/03/2022 17:27
Creation date:
17/04/2018 00:54
Scientific Publication
Derivation of species-specific hybridization-like knowledge out of cross-species hybridization results
7
Bar-Or, C., Department of Ornamental Horticulture, ARO Volcani Centre, Bet Dagan, Israel, The Robert H. Smith Institute of Plant Sciences and Genetics in Agriculture, Faculty of Agriculture of the Hebrew University of Jerusalem, Rehovot, Israel
Bar-Eyal, M., Department of Nematology, ARO Volcani Center, Bet Dagan, Israel
Gal, T.Z., Department of Ornamental Horticulture, ARO Volcani Centre, Bet Dagan, Israel
Kapulnik, Y., Department of Agronomy and Natural Resources, ARO Volcani Center, Bet Dagan, Israel
Czosnek, H., The Robert H. Smith Institute of Plant Sciences and Genetics in Agriculture, Faculty of Agriculture of the Hebrew University of Jerusalem, Rehovot, Israel
Koltai, H., Department of Ornamental Horticulture, ARO Volcani Centre, Bet Dagan, Israel
Derivation of species-specific hybridization-like knowledge out of cross-species hybridization results
Background: One of the approaches for conducting genomics research in organisms without extant microarray platforms is to profile their expression patterns by using Cross-Species Hybridization (CSH). Several different studies using spotted microarray and CSH produced contradicting conclusions in the ability of CSH to reflect biological processes described by species-specific hybridization (SSH). Results: We used a tomato-spotted cDNA microarray to examine the ability of CSH to reflect SSH data. Potato RNA was hybridized to spotted cDNA tomato and potato microarrays to generate CSH and SSH data, respectively. Difficulties arose in obtaining transcriptomic data from CSH that reflected those obtained from SSH. Nevertheless, once the data was filtered for those corresponding to matching probe sets, by restricting proper cutoffs of probe homology, the CSH transcriptome data showed improved reflection of those of the SSH. Conclusions: This study evaluated the relative performance of CSH compared to SSH, and proposes methods to ensure that CSH closely reflects the biological process analyzed by SSH. © 2006 Bar-Or et al; licensee BioMed Central Ltd.
Scientific Publication
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