Towards the establishment of a cesium fountain clock at CENAM

López-Romero, J. Mauricio; Lopez-Lopez, E. de Carlos L. S.; Shtin, N.A.

doi:10.1109/cpem.2010.5544360

Cited by 2 publications

(2 citation statements)

References 2 publications

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“…For each sample at least 1 μg total RNA was used and sent for analysis at IMGM Laboratories GmbH, Germany. The raw data were analyzed in the R Project for Statistical Computing program (R Development Core Team, 2011; version 2.13.2), using the packages Agi4x44PreProcess [ 65 ] and Limma [ 66 ].…”

Section: Methodsmentioning

confidence: 99%

“…The microarray features were filtered according to the Agilent quality control flags: if the feature was determined to be well above background, if the noise did not exceed a threshold, and if it was not saturated (IsNOTWellAboveBG, IsSaturated and IsFeatNonUnifOL [ 65 ]) in at least 10 % of the total microarray count, then that particular microarray feature was retained for further analysis. The raw data of the remaining 37,865 (from a total of 42,034) features was robust spline normalized (‘rsn’; [ 67 ]).…”

Section: Methodsmentioning

confidence: 99%

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Bimodal dynamics of primary metabolism-related responses in tolerant potato-Potato virus Y interaction

et al. 2015

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BackgroundPotato virus Y (PVY) is a major pathogen that causes substantial economic losses in worldwide potato production. Different potato cultivars differ in resistance to PVY, from severe susceptibility, through tolerance, to complete resistance. The aim of this study was to better define the mechanisms underlying tolerant responses of potato to infection by the particularly aggressive PVYNTN strain. We focused on the dynamics of the primary metabolism-related processes during PVYNTN infection.ResultsA comprehensive analysis of the dynamic changes in primary metabolism was performed, which included whole transcriptome analysis, nontargeted proteomics, and photosynthetic activity measurements in potato cv. Désirée and its transgenic counterpart depleted for accumulation of salicylic acid (NahG-Désirée). Faster multiplication of virus occurred in the NahG-Désirée, with these plants developing strong disease symptoms. We show that while the dynamics of responses at the transcriptional level are extensive and bimodal, this is only partially translated to the protein level, and to the final functional outcome. Photosynthesis-related genes are transiently induced before viral multiplication is detected and it is down-regulated later on. This is reflected as a deficiency of the photosynthetic apparatus at the onset of viral multiplication only. Interestingly, specific and constant up-regulation of some RuBisCO transcripts was detected in Désirée plants, which might be important, as these proteins have been shown to interact with viral proteins.In SA-deficient and more sensitive NahG-Désirée plants, consistent down-regulation of photosynthesis-related genes was detected. A constant reduction in the photochemical efficiency from the onset of viral multiplication was identified; in nontransgenic plants this decrease was only transient. The transient reduction in net photosynthetic rate occurred in both genotypes with the same timing, and coincided with changes in stomatal conductivity.ConclusionsDown-regulation of photosynthesis-related gene expression and decreased photosynthetic activity is in line with other studies that have reported the effects of biotic stress on photosynthesis. Here, we additionally detected induction of light-reaction components in the early stages of PVYNTN infection of tolerant interaction. As some of these components have already been shown to interact with viral proteins, their overproduction might contribute to the absence of symptoms in cv. Désirée.Electronic supplementary materialThe online version of this article (doi:10.1186/s12864-015-1925-2) contains supplementary material, which is available to authorized users.

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Section: Methodsmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%