Identification of tightly regulated groups of genes during Drosophila melanogaster embryogenesis

TY - JOUR

T1 - Identification of tightly regulated groups of genes during Drosophila melanogaster embryogenesis

AU - Hooper, Sean D

AU - Boué, Stephanie

AU - Krause, Roland

AU - Jensen, Lars J

AU - Mason, Christopher E

AU - Ghanim, Murad

AU - White, Kevin P

AU - Furlong, Eileen E M

AU - Bork, Peer

PY - 2007

Y1 - 2007

N2 - Time-series analysis of whole-genome expression data during Drosophila melanogaster development indicates that up to 86% of its genes change their relative transcript level during embryogenesis. By applying conservative filtering criteria and requiring 'sharp' transcript changes, we identified 1534 maternal genes, 792 transient zygotic genes, and 1053 genes whose transcript levels increase during embryogenesis. Each of these three categories is dominated by groups of genes where all transcript levels increase and/or decrease at similar times, suggesting a common mode of regulation. For example, 34% of the transiently expressed genes fall into three groups, with increased transcript levels between 2.5-12, 11-20, and 15-20 h of development, respectively. We highlight common and distinctive functional features of these expression groups and identify a coupling between downregulation of transcript levels and targeted protein degradation. By mapping the groups to the protein network, we also predict and experimentally confirm new functional associations.

AB - Time-series analysis of whole-genome expression data during Drosophila melanogaster development indicates that up to 86% of its genes change their relative transcript level during embryogenesis. By applying conservative filtering criteria and requiring 'sharp' transcript changes, we identified 1534 maternal genes, 792 transient zygotic genes, and 1053 genes whose transcript levels increase during embryogenesis. Each of these three categories is dominated by groups of genes where all transcript levels increase and/or decrease at similar times, suggesting a common mode of regulation. For example, 34% of the transiently expressed genes fall into three groups, with increased transcript levels between 2.5-12, 11-20, and 15-20 h of development, respectively. We highlight common and distinctive functional features of these expression groups and identify a coupling between downregulation of transcript levels and targeted protein degradation. By mapping the groups to the protein network, we also predict and experimentally confirm new functional associations.

U2 - 10.1038/msb4100112

DO - 10.1038/msb4100112

M3 - Journal article

C2 - 17224916

SN - 1744-4292

VL - 3

SP - 72

JO - Molecular Systems Biology

JF - Molecular Systems Biology

ER -