Cargando…

Stepwise large genome assembly approach: a case of Siberian larch (Larix sibirica Ledeb)

BACKGROUND: De novo assembling of large genomes, such as in conifers (~ 12–30 Gbp), which also consist of ~ 80% of repetitive DNA, is a very complex and computationally intense endeavor. One of the main problems in assembling such genomes lays in computing limitations of nucleotide sequence assembly...

Descripción completa

Detalles Bibliográficos
Autores principales:	Kuzmin, Dmitry A., Feranchuk, Sergey I., Sharov, Vadim V., Cybin, Alexander N., Makolov, Stepan V., Putintseva, Yuliya A., Oreshkova, Natalya V., Krutovsky, Konstantin V.
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	BioMed Central 2019
Materias:	Research
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6362582/ https://www.ncbi.nlm.nih.gov/pubmed/30717661 http://dx.doi.org/10.1186/s12859-018-2570-y

Ejemplares similares

Genetic Adaptation of Siberian Larch (Larix sibirica Ledeb.) to High Altitudes
por: Novikova, Serafima V., et al.
Publicado: (2023)

Siberian larch (Larix sibirica Ledeb.) chloroplast genome and development of polymorphic chloroplast markers
por: Bondar, Eugeniya I., et al.
Publicado: (2019)

Annotation of Siberian Larch (Larix sibirica Ledeb.) Nuclear Genome—One of the Most Cold-Resistant Tree Species in the Only Deciduous GENUS in Pinaceae
por: Bondar, Eugenia I., et al.
Publicado: (2022)

Siberian larch (Larix sibirica Ledeb.) mitochondrial genome assembled using both short and long nucleotide sequence reads is currently the largest known mitogenome
por: Putintseva, Yuliya A., et al.
Publicado: (2020)

Modification of Arabinogalactan Isolated from Larix sibirica Ledeb. into Sulfated Derivatives with the Controlled Molecular Weights
por: Malyar, Yuriy N., et al.
Publicado: (2021)

De novo sequencing, assembly and functional annotation of Armillaria borealis genome
por: Akulova, Vasilina S., et al.
Publicado: (2020)

Mobile genetic elements explain size variation in the mitochondrial genomes of four closely-related Armillaria species
por: Kolesnikova, Anna I., et al.
Publicado: (2019)

Complete mitochondrial genome of a woolly mammoth (Mammuthus primigenius) from Maly Lyakhovsky Island (New Siberian Islands, Russia) and its phylogenetic assessment
por: Kornienko, Igor V., et al.
Publicado: (2018)

Comparative Genomics Analysis of Repetitive Elements in Ten Gymnosperm Species: “Dark Repeatome” and Its Abundance in Conifer and Gnetum Species
por: Titievsky, Avi, et al.
Publicado: (2021)

Transcriptome and proteome profiling of adventitious root development in hybrid larch (Larix kaempferi × Larix olgensis)
por: Han, Hua, et al.
Publicado: (2014)

Larix Sibirica Arabinogalactan Hydrolysis over Zr-SBA-15; Depolymerization Insight
por: Sychev, Valentin V., et al.
Publicado: (2022)

Specific leaf area of European Larch (Larix decidua Mill.)
por: Fellner, Helga, et al.
Publicado: (2016)

Comprehensive collection of genes and comparative analysis of full-length transcriptome sequences from Japanese larch (Larix kaempferi) and Kuril larch (Larix gmelinii var. japonica)
por: Mishima, Kentaro, et al.
Publicado: (2022)

De novo assembling and primary analysis of genome and transcriptome of gray whale Eschrichtius robustus
por: Moskalev, Alexey А., et al.
Publicado: (2017)

Statement on the safety of taxifolin‐rich extract from Dahurian Larch (Larix gmelinii)
por: Turck, Dominique, et al.
Publicado: (2017)

Scientific Opinion on taxifolin‐rich extract from Dahurian Larch (Larix gmelinii)
por: Turck, Dominique, et al.
Publicado: (2017)

Strong cooling induced by stand-replacing fires through albedo in Siberian larch forests
por: Chen, Dong, et al.
Publicado: (2018)

Diverging climate trends in Mongolian taiga forests influence growth and regeneration of Larix sibirica
por: Dulamsuren, Choimaa, et al.
Publicado: (2010)

Different environmental requirements of female and male Siberian ibex, Capra sibirica
por: Han, Lei, et al.
Publicado: (2021)

Physical and mechanical properties of wood and their geographic variations in Larix sibirica trees naturally grown in Mongolia
por: Tumenjargal, Bayasaa, et al.
Publicado: (2020)

Temporary immersion bioreactor system for propagation by somatic embryogenesis of hybrid larch (Larix × eurolepis Henry)
por: Le, Kim-Cuong, et al.
Publicado: (2021)

Genetic Diversity and Population Structure of Siberian apricot (Prunus sibirica L.) in China
por: Li, Ming, et al.
Publicado: (2013)

Serum biochemical reference interval determination in wild Siberian weasel (Mustela sibirica)
por: Ha, Minjong, et al.
Publicado: (2023)

Anatomical observation and transcriptome analysis of buds reveal the association between the AP2 gene family and reproductive induction in hybrid larch (Larix kaempferi × Larix olgensis)
por: Hao, Jun-Fei, et al.
Publicado: (2022)

Cell cytotoxity and anti-glycation activity of taxifolin-rich extract from Japanese larch, Larix kaempferi
por: Muramatsu, Daisuke, et al.
Publicado: (2019)

First Report of the Larch Longhorn (Tetropium gabrieli Weise, Coleoptera: Cerambycidae: Spondylidinae) on Larix spp. in Lithuania
por: Lynikienė, Jūratė, et al.
Publicado: (2021)

Activity strategy and pattern of the Siberian jerboa (Orientallactaga sibirica) in the Alxa desert region, China
por: Ji, Yu, et al.
Publicado: (2021)

Genetic diversity and conservation of Siberian apricot (Prunus sibirica L.) based on microsatellite markers
por: Wang, Xinxin, et al.
Publicado: (2023)

Deciphering Small Noncoding RNAs during the Transition from Dormant Embryo to Germinated Embryo in Larches (Larix leptolepis)
por: Zhang, Junhong, et al.
Publicado: (2013)

Structure and Composition of Natural Gmelin Larch (Larix gmelinii var. gmelinii) Forests in Response to Spatial Climatic Changes
por: Zhang, Jingli, et al.
Publicado: (2013)

Genetic Mapping of Prince Rupprecht’s Larch (Larix principis-rupprechtii Mayr) by Specific-Locus Amplified Fragment Sequencing
por: Dong, Mingliang, et al.
Publicado: (2019)

Soil Respiration of the Dahurian Larch (Larix gmelinii) Forest and the Response to Fire Disturbance in Da Xing’an Mountains, China
por: Hu, Tongxin, et al.
Publicado: (2017)

Influence of Long-Term Thinning on the Biomass Carbon and Soil Respiration in a Larch (Larix gmelinii) Forest in Northeastern China
por: Wang, Huimei, et al.
Publicado: (2013)

In vitro anti-inflammatory and anti-lipid accumulation properties of taxifolin-rich extract from the Japanese larch, Larix kaempferi
por: Muramatsu, Daisuke, et al.
Publicado: (2020)

Soil propagule banks of ectomycorrhizal fungi associated with Larix cajanderi above the treeline in the Siberian Arctic
por: Miyamoto, Yumiko, et al.
Publicado: (2022)

Comparative Genomics of Seasonal Senescence in Forest Trees
por: Batalova, Anastasia Y., et al.
Publicado: (2022)

Functional nuclear retention of pre-mRNA involving Cajal bodies during meiotic prophase in European larch (Larix decidua)
por: Rudzka, Magda, et al.
Publicado: (2022)

Chloroplast and mitochondrial genetic variation of larches at the Siberian tundra-taiga ecotone revealed by de novo assembly
por: Zimmermann, Heike H., et al.
Publicado: (2019)

De novo transcriptome assembly of cold stressed clones of the hexaploid Sequoia sempervirens (D. Don) Endl.
por: Breidenbach, Natalie, et al.
Publicado: (2020)

Phylogeography Study of the Siberian Apricot (Prunus sibirica L.) in Northern China Assessed by Chloroplast Microsatellite and DNA Makers
por: Wang, Zhe, et al.
Publicado: (2017)

Cannot write session to /tmp/vufind_sessions/sess_bcvdl2jbsjkhjfong6rv0an9ol