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A species-specific nucleosomal signature defines a periodic distribution of amino acids in proteins

ABSTRACT: A species-specific nucleosomal signature defines a periodic distribution of amino acids in proteins

PROVIDER: PRJNA227083 | ENA |

REPOSITORIES: ENA

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A species-specific nucleosomal signature defines a periodic distribution of amino acids in proteins.

Project description:Nucleosomes are the basic structural units of chromatin. Most of the yeast genome is organized in a pattern of positioned nucleosomes that is stably maintained under a wide range of physiological conditions. In this work, we have searched for sequence determinants associated with positioned nucleosomes in four species of fission and budding yeasts. We show that mononucleosomal DNA follows a highly structured base composition pattern, which differs among species despite the high degree of histone conservation. These nucleosomal signatures are present in transcribed and non-transcribed regions across the genome. In the case of open reading frames, they correctly predict the relative distribution of codons on mononucleosomal DNA, and they also determine a periodicity in the average distribution of amino acids along the proteins. These results establish a direct and species-specific connection between the position of each codon around the histone octamer and protein composition.

| S-EPMC4422121 | biostudies-literature

A species-specific nucleosomal signature defines a periodic distribution of amino acids in proteins

2015-04-10 | GSE52170 | GEO

A species-specific nucleosomal signature defines a periodic distribution of amino acids in proteins

Project description:Sequencing of mononucleosomal DNA during asynchronous mitosis in Schizosaccharomyces pombe, Schizosaccharomyces octosporus, Schizosaccharomyces japonicus and Saccharomyces cerevisiae Samples from mononucleosomal DNA from asynchronous mitosis of four species of budding (Saccharomyces cerevisiae W303-1a) and fission yeasts (S. pombe wild type 972h-, S. octosporus CBS1804, S. japonicus var. japonicus ade12- FY53) were sequenced (Illumina Genome Analyzer IIx and HiSeq 2500) using the single read and paired end protocol.

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Impact of Preoperative Oral Branched-chain Amino Acids on Reducing Postoperative Insulin Resistance.

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Development of a new biomarker for the detection of colorectal cancer using plasma concentrations of amino acids and metabolites

Project description:Primary outcome(s): Plasma concentrations of metabolites that have amino moieties and other metabolites

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Examining the stability of nucleosomal modifications during pull-down affinity purification

Project description:Here we investigated the stability of nucleosomal modifications during pull-down affinity purification with HeLa nuclear extracts. Unmodified di-nucleosomes and di-nucleosomes decorated with H3K4me3K9acK14acK18acK23acK27ac, H4K5acK8acK12acK16acK20me2 and incorporating histone variant H2A.Z were incubated with HeLa nuclear extract or buffer alone for 4 hours at 4 degrees Celsius. The relative abundances of nucleosomal modifications were quantified using LC-MS.

2023-12-10 | PXD042823 | Pride

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