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Affymetrix苜蓿基因芯片阵列适用于苜蓿(紫花苜蓿)的转录本分析。

The Affymetrix Medicago GeneChip array is applicable for transcript analysis of alfalfa (Medicago sativa).

作者信息

Tesfaye Mesfin, Silverstein Kevin A T, Bucciarelli Bruna, Samac Deborah A, Vance Carroll P

机构信息

Department of Plant Pathology, University of Minnesota, Saint Paul, MN 55108, USA.

Department of Plant Biology, University of Minnesota, Saint Paul, MN 55108, USA.

出版信息

Funct Plant Biol. 2006 Aug;33(8):783-788. doi: 10.1071/FP06065.

DOI:10.1071/FP06065
PMID:32689289
Abstract

The recently released Affymetrix GeneChip Medicago Genome Array contains approximately 52 700 probe sets representing genes in both the model legume Medicago truncatula Gaertn. and the closely related crop species Medicago sativa L. (alfalfa). We evaluated the utility of the Medicago GeneChip for monitoring genome-wide expression of M. truncatula and alfalfa seedlings grown to the first trifoliate leaf stage. We found that approximately 40-54% of the Medicago probes were detected in leaf or root samples of alfalfa or M. truncatula. Approximately 45-59% of the detected Medicago probes were called 'present' in all replicate GeneChips of Medicago species, indicating a considerable overlap in the number and type of Medicago probes detected between root and leaf organs. Nevertheless, gene expression differences between roots and leaf organs accounted for approximately 17% of the total variation, regardless of the Medicago species from which the samples were harvested. The result shows that the Medicago GeneChip is applicable for transcript analysis for both alfalfa and M. truncatula.

摘要

最近发布的Affymetrix基因芯片苜蓿基因组阵列包含约52700个探针集,代表了模式豆科植物蒺藜苜蓿(Medicago truncatula Gaertn.)和近缘作物物种紫花苜蓿(Medicago sativa L.,苜蓿)中的基因。我们评估了苜蓿基因芯片在监测生长至第一片三出复叶阶段的蒺藜苜蓿和苜蓿幼苗全基因组表达方面的实用性。我们发现,在苜蓿或蒺藜苜蓿的叶片或根样本中检测到了约40 - 54%的苜蓿探针。在苜蓿物种的所有重复基因芯片中,约45 - 59%的检测到的苜蓿探针被判定为“存在”,这表明在根和叶器官中检测到的苜蓿探针的数量和类型有相当大的重叠。然而,无论样本取自哪种苜蓿物种,根和叶器官之间的基因表达差异约占总变异的17%。结果表明,苜蓿基因芯片适用于苜蓿和蒺藜苜蓿的转录本分析。

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