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计算和实验分析鉴定出拟南芥在种子早期发育过程中特异性表达的基因。

Computational and experimental analysis identifies Arabidopsis genes specifically expressed during early seed development.

作者信息

Becerra Cristian, Puigdomenech Pere, Vicient Carlos M

机构信息

Laboratori de Genetica Molecular i Vegetal, CSIC-IRTA, Jordi Girona 18-36, 08034, Barcelona, Spain.

出版信息

BMC Genomics. 2006 Feb 28;7:38. doi: 10.1186/1471-2164-7-38.

DOI:10.1186/1471-2164-7-38
PMID:16504176
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC1420293/
Abstract

BACKGROUND

Plant seeds are complex organs in which maternal tissues, embryo and endosperm, follow distinct but coordinated developmental programs. Some morphogenetic and metabolic processes are exclusively associated with seed development. The goal of this study was to explore the feasibility of incorporating the available online bioinformatics databases to discover Arabidopsis genes specifically expressed in certain organs, in our case immature seeds.

RESULTS

A total of 11,032 EST sequences obtained from isolated immature seeds were used as the initial dataset (178 of them newly described here). A pilot study was performed using EST virtual subtraction followed by microarray data analysis, using the Genevestigator tool. These techniques led to the identification of 49 immature seed-specific genes. The findings were validated by RT-PCR analysis and in situ hybridization.

CONCLUSION

We conclude that the combined in silico data analysis is an effective data mining strategy for the identification of tissue-specific gene expression.

摘要

背景

植物种子是复杂的器官，其中母体组织、胚和胚乳遵循不同但协调的发育程序。一些形态发生和代谢过程仅与种子发育相关。本研究的目的是探索整合可用的在线生物信息学数据库以发现拟南芥中在特定器官（在我们的研究中为未成熟种子）中特异性表达的基因的可行性。

结果

从分离的未成熟种子中获得的总共11032条EST序列用作初始数据集（其中178条在此处首次描述）。使用Genevestigator工具，通过EST虚拟扣除随后进行微阵列数据分析进行了一项初步研究。这些技术导致鉴定出49个未成熟种子特异性基因。通过RT-PCR分析和原位杂交对结果进行了验证。

结论

我们得出结论，组合的计算机数据分析是鉴定组织特异性基因表达的有效数据挖掘策略。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7c3d/1420293/1ff174048e5d/1471-2164-7-38-4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7c3d/1420293/ba420e6f52bd/1471-2164-7-38-1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7c3d/1420293/e5a7fb9d9bd2/1471-2164-7-38-2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7c3d/1420293/7048e587348f/1471-2164-7-38-3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7c3d/1420293/1ff174048e5d/1471-2164-7-38-4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7c3d/1420293/ba420e6f52bd/1471-2164-7-38-1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7c3d/1420293/e5a7fb9d9bd2/1471-2164-7-38-2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7c3d/1420293/7048e587348f/1471-2164-7-38-3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7c3d/1420293/1ff174048e5d/1471-2164-7-38-4.jpg

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