Preliminary Results of De Novo Whole Genome Sequencing of the Siberian Larch (Larix sibirica Ledeb.) and the Siberian Stone Pine (Pinus sibirica Du Tour)
The Illumina HiSeq2000 DNA sequencing generated 2 906 977 265 high quality paired-end nucleotide sequences (reads) and 576 Gbp for Siberian larch (Larix sibirica Ledeb.) that corresponds to 48X coverage of the larch genome (12.03 Gbp), and 3 427 566 813 reads and 679 Gbp for Siberian stone pine (Pin...
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Russian Academy of Sciences, Siberian Branch Publishing House
2014-08-01
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doaj-24160dc34b78469ca0244b50b6f545db2021-07-02T03:43:37ZengRussian Academy of Sciences, Siberian Branch Publishing HouseСибирский лесной журнал2311-14102312-20992014-08-01147983Preliminary Results of De Novo Whole Genome Sequencing of the Siberian Larch (Larix sibirica Ledeb.) and the Siberian Stone Pine (Pinus sibirica Du Tour)K. V. Krutovsky0N. V. Oreshkova1Yu. A. Putintseva2A. A. Ibe3K. O. Deych4E. A. Shilkina5Siberian Federal University Genome Research and Education Centre; N. I. Vavilov Institute of General Genetics, Russian Academy of Sciences; University of Göttingen; Texas A&M UniversitySiberian Federal University Genome Research and Education Centre; V. N. Sukachev Institute of Forest, Russian Academy of Sciences, Siberian BranchSiberian Federal University Genome Research and Education CentreSiberian Federal University Genome Research and Education Centre; Branch of the Russian Centre for Forest Protection Centre for Forest Protection of Krasnoyarsk TerritorySiberian Federal University Genome Research and Education Centre; Branch of the Russian Centre for Forest Protection Centre for Forest Protection of Krasnoyarsk TerritorySiberian Federal University Genome Research and Education Centre; Branch of the Russian Centre for Forest Protection Centre for Forest Protection of Krasnoyarsk TerritoryThe Illumina HiSeq2000 DNA sequencing generated 2 906 977 265 high quality paired-end nucleotide sequences (reads) and 576 Gbp for Siberian larch (Larix sibirica Ledeb.) that corresponds to 48X coverage of the larch genome (12.03 Gbp), and 3 427 566 813 reads and 679 Gbp for Siberian stone pine (Pinus sibirica Du Tour) that corresponds to 29X coverage of its genome (23.6 Gbp). These data are not enough to assemble and annotate whole genomes, but the obtained nucleotide sequences have allowed us to discover and develop effective highly polymorphic molecular genetic markers, such as microsatellite loci that are required for population genetic studies and identification of the timber origin. Sequence data can be used also to discover single nucleotide polymorphisms (SNPs). Genomic studies of Russian boreal forests and major phytopathogens associated with them will also allow us to identify biomarkers that can be used for solving important scientific and economic problems related to the conservation of forest genetic resources and breeding more resilient and fast growing trees with improved timber and resistance to diseases and adverse environmental factors.http://xn--80abmehbaibgnewcmzjeef0c.xn--p1ai/upload/iblock/d29/d29721d4d9c6f66d0bb5927811caeaf5.pdfgenomede novo sequencingSiberian larch (Larix sibirica Ledeb.)Siberian stone pine (Pinus sibirica Du Tour) |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
K. V. Krutovsky N. V. Oreshkova Yu. A. Putintseva A. A. Ibe K. O. Deych E. A. Shilkina |
spellingShingle |
K. V. Krutovsky N. V. Oreshkova Yu. A. Putintseva A. A. Ibe K. O. Deych E. A. Shilkina Preliminary Results of De Novo Whole Genome Sequencing of the Siberian Larch (Larix sibirica Ledeb.) and the Siberian Stone Pine (Pinus sibirica Du Tour) Сибирский лесной журнал genome de novo sequencing Siberian larch (Larix sibirica Ledeb.) Siberian stone pine (Pinus sibirica Du Tour) |
author_facet |
K. V. Krutovsky N. V. Oreshkova Yu. A. Putintseva A. A. Ibe K. O. Deych E. A. Shilkina |
author_sort |
K. V. Krutovsky |
title |
Preliminary Results of De Novo Whole Genome Sequencing of the Siberian Larch (Larix sibirica Ledeb.) and the Siberian Stone Pine (Pinus sibirica Du Tour) |
title_short |
Preliminary Results of De Novo Whole Genome Sequencing of the Siberian Larch (Larix sibirica Ledeb.) and the Siberian Stone Pine (Pinus sibirica Du Tour) |
title_full |
Preliminary Results of De Novo Whole Genome Sequencing of the Siberian Larch (Larix sibirica Ledeb.) and the Siberian Stone Pine (Pinus sibirica Du Tour) |
title_fullStr |
Preliminary Results of De Novo Whole Genome Sequencing of the Siberian Larch (Larix sibirica Ledeb.) and the Siberian Stone Pine (Pinus sibirica Du Tour) |
title_full_unstemmed |
Preliminary Results of De Novo Whole Genome Sequencing of the Siberian Larch (Larix sibirica Ledeb.) and the Siberian Stone Pine (Pinus sibirica Du Tour) |
title_sort |
preliminary results of de novo whole genome sequencing of the siberian larch (larix sibirica ledeb.) and the siberian stone pine (pinus sibirica du tour) |
publisher |
Russian Academy of Sciences, Siberian Branch Publishing House |
series |
Сибирский лесной журнал |
issn |
2311-1410 2312-2099 |
publishDate |
2014-08-01 |
description |
The Illumina HiSeq2000 DNA sequencing generated 2 906 977 265 high quality paired-end nucleotide sequences (reads) and 576 Gbp for Siberian larch (Larix sibirica Ledeb.) that corresponds to 48X coverage of the larch genome (12.03 Gbp), and 3 427 566 813 reads and 679 Gbp for Siberian stone pine (Pinus sibirica Du Tour) that corresponds to 29X coverage of its genome (23.6 Gbp). These data are not enough to assemble and annotate whole genomes, but the obtained nucleotide sequences have allowed us to discover and develop effective highly polymorphic molecular genetic markers, such as microsatellite loci that are required for population genetic studies and identification of the timber origin. Sequence data can be used also to discover single nucleotide polymorphisms (SNPs). Genomic studies of Russian boreal forests and major phytopathogens associated with them will also allow us to identify biomarkers that can be used for solving important scientific and economic problems related to the conservation of forest genetic resources and breeding more resilient and fast growing trees with improved timber and resistance to diseases and adverse environmental factors. |
topic |
genome de novo sequencing Siberian larch (Larix sibirica Ledeb.) Siberian stone pine (Pinus sibirica Du Tour) |
url |
http://xn--80abmehbaibgnewcmzjeef0c.xn--p1ai/upload/iblock/d29/d29721d4d9c6f66d0bb5927811caeaf5.pdf |
work_keys_str_mv |
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