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1

Sequencing of the largest chromosome of Paramecium tetraurelia

100%
Nowak J. K.
|
EN
The largest, megabase, somatic chromosome of P. tetraurelia was isolated and sequenced in order to explore its organization and gene content. The AT-rich chromosome is compact with very small introns, short intergenic regions and a coding density of at least 74%, higher than that reported for budding yeast or any other free-living eukaryote. Homology to known proteins could be detected only for 57% of the 464 potential protein coding genes. Subsequently, the megabase chromosome sequence was used during the whole genome sequencing project as a reference to evaluate sequence assembly and gene annotation accuracy. In a pilot project of the global analysis of P. tetraurelia gene expression during autogamy, DNA microarrays were used. Statistical data analysis allowed the identification of four clusters of co-expressed genes. Screening for silencing phenotypes of 15 autogamy specific genes revealed that 4 genes were essential during vegetative growth and 3 others were essential for successful sexual process.
2

Unidirectional orientation of twelve expressed tagged sites within 40 kb of human chromosomal region 22q13.1

100%
Pusch C., Wang Z., Roe B., Blin N.
Journal of Applied Genetics
|
1998
|
vol. 39
|
issue 2
199-204
EN
. The single copy sequence D22S16 from human chromosomal region 22q13.1 that carries a putative conserved gene, was used to probe a chromosome 22-specific cosmid library. Genomic sequencing of one positive, 40 kb long cosmid (C1155) revealed a hereto unmapped gene (a subunit of DNA-dependent RNA polymerase II, POLR2F), a SOX9-related sequence and 12 expressed sequence tags. Although not parts of one consecutive gene, all 12 ESTs and, in addition, the polymerase gene are oriented in the same transcriptional direction within the genomic sequence represented by cosmid C1155.
3

Application of next-generation sequencing method to decode potato genome

100%
Gromadka R.
Biotechnologia
|
2010
|
issue 4
69-75
EN
The last years have been a time of exponential progress of sequencing methods. The beginning of the 21st closed a thirty-year domination of sequencing by the Sanger's method. Next generation technology resulted in a mass sequencing of the successive genomes. The time necessary to discover full genomes, as occurred for potato, was dramatically reduced.
4

Noncoding RNA transcriptomics

88%
Zywicki M.
Biotechnologia
|
2010
|
issue 3
191-201
EN
The growing amount of knowledge about noncoding RNA molecules indicates their major role in regulation of cellular processes. For a long time there was no method which would allow for massive identification and analysis of such kind of transcripts. In recent years, the ongoing explosion of high throughput sequencing methods allowed a deep look into the transcriptome via the cDNA library analysis techniques, like RNA-seq. Since most of such protocols has been aimed for mRNA expression profiling, their adaptation for noncoding RNA research is necessary. It is mainly caused by differences in structure and properties of those two gropus of transcripts. In this article, the main difficulties and challenges in investigation of noncoding RNAs with high throughput sequencing methods will be discussed.
5

Comparative sequencing of genomes: generating of INDEL and SNP genetic markers

75%
Ziolkowski P. A., Babula-Skowronska D., Kaczmarek M., Ciesla A., Sadowski J.
Biotechnologia
|
2010
|
issue 4
53-68
EN
Comparison of genome sequences has become an important approach to identify and understand biological significance of the variations and fluxes that occur through a genome. The main subject of the work concentrates on identification of indels and SNPs in large genomes and their potential application in biotechnology. Importantly, fine elaboration of genome structure and sequence polymorphism that results from resequencing promises to benefit breeding, biotechnology and medical research. The article also describes how the data extracted from comparative studies of genomes depends on phylogenetic distances of the species involved.
6

The transpositional elements as a tool for plant genome mapping

63%
Wochniak P., Malepszy S.
Biotechnologia
|
1994
|
issue 3
15-29
EN
This work aims at reviewing current progress in the field of plant transposble elements, especially those described as Ac/Ds and En/dSpm systems, first discovered in maize.We gave the molecular characteristics of plant transposones and the rules of their behaviour within a genome.The procedure for a particular gene mapping and for mapping of many genes responsible for biochemical pathway were cited.In comparison with other genome mapping methods the advantages and drawbacks of "gene tagging" were envisaged.The enclosed tables provide many documental examples of plant genes identification via "gene tagging" method.
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