Показать сокращенную информацию
De novo sequencing, assembly and functional annotation of Armillaria borealis genome
Автор | Akulova Vasilina S. | |
Автор | Sharov Vadim V. | |
Автор | Aksyonova Anastasiya I. | |
Автор | Putintseva Yuliya A. | |
Автор | Oreshkova Natalya V. | |
Автор | Feranchuk Sergey I. | |
Автор | Kuzmin Dmitry A. | |
Автор | Pavlov Igor N. | |
Автор | Litovka Yulia A. | |
Автор | Krutovsky Konstantin V. | |
Дата внесения | 2021-02-15T12:32:17Z | |
Дата, когда ресурс стал доступен | 2021-02-15T12:32:17Z | |
Дата публикации | 2020 | |
ISSN | 14712164 | |
URI (для ссылок/цитирований) | https://elib.sfu-kras.ru/handle/2311/137954 | |
Описание | Статья из журнала. | |
Аннотация | BACKGROUND: Massive forest decline has been observed almost everywhere as a result of negative anthropogenic and climatic effects, which can interact with pests, fungi and other phytopathogens and aggravate their effects. Climatic changes can weaken trees and make fungi, such as Armillaria more destructive. Armillaria borealis (Marxm. & Korhonen) is a fungus from the Physalacriaceae family (Basidiomycota) widely distributed in Eurasia, including Siberia and the Far East. Species from this genus cause the root white rot disease that weakens and often kills woody plants. However, little is known about ecological behavior and genetics of A. borealis. According to field research data, A. borealis is less pathogenic than A. ostoyae, and its aggressive behavior is quite rare. Mainly A. borealis behaves as a secondary pathogen killing trees already weakened by other factors. However, changing environment might cause unpredictable effects in fungus behavior. RESULTS: The de novo genome assembly and annotation were performed for the A. borealis species for the first time and presented in this study. The A. borealis genome assembly contained ~ 68 Mbp and was comparable with ~ 60 and ~ 79.5 Mbp for the A. ostoyae and A. mellea genomes, respectively. The N50 for contigs equaled 50,544 bp. Functional annotation analysis revealed 21,969 protein coding genes and provided data for further comparative analysis. Repetitive sequences were also identified. The main focus for further study and comparative analysis will be on the enzymes and regulatory factors associated with pathogenicity. CONCLUSIONS: Pathogenic fungi such as Armillaria are currently one of the main problems in forest conservation. A comprehensive study of these species and their pathogenicity is of great importance and needs good genomic resources. The assembled genome of A. borealis presented in this study is of sufficiently good quality for further detailed comparative study on the composition of enzymes in other Armillaria species. There is also a fundamental problem with the identification and classification of species of the Armillaria genus, where the study of repetitive sequences in the genomes of basidiomycetes and their comparative analysis will help us identify more accurately taxonomy of these species and reveal their evolutionary relationships. | |
Является частью серии | Vol. 21 | |
Ссылка на другой сайт | https://www.scopus.com/inward/record.uri?eid=2-s2.0-85090818813&doi=10.1186%2fs12864-020-06964-6&partnerID=40&md5=eea12fc6fc452cf7e0086a883b133219 | |
Ссылка на другой сайт | http://apps.webofknowledge.com/InboundService.do?SID=X1HogM8pCtTkhgkuprQ&product=WOS&UT=WOS%3A000571770900001&SrcApp=Alerting&DestFail=http%3A%2F%2Fwww.webofknowledge.com&Init=Yes&action=retrieve&SrcAuth=Alerting&Func=Frame&customersID=Alerting&IsProductCode=Yes&mode=FullRecord | |
Тема | annotation | |
Тема | armillaria | |
Тема | de novo sequencing | |
Тема | fungal forest pathogen | |
Тема | genome | |
Название | De novo sequencing, assembly and functional annotation of Armillaria borealis genome | |
Тип | Journal Article | |
Контакты автора | Akulova Vasilina S.: Siberian Fed Univ, Inst Fundamental Biol & Biotechnol, Lab Forest Genom, Genome Res & Educ Ctr, Krasnoyarsk 660036, Russia; Russian Acad Sci, Krasnoyarsk Sci Ctr, Siberian Branch, Lab Genom Res & Biotechnol,Fed Res Ctr, Krasnoyarsk 660036, Russia | |
Контакты автора | Sharov Vadim V.: Siberian Fed Univ, Inst Fundamental Biol & Biotechnol, Lab Forest Genom, Genome Res & Educ Ctr, Krasnoyarsk 660036, Russia; Russian Acad Sci, Krasnoyarsk Sci Ctr, Siberian Branch, Lab Genom Res & Biotechnol,Fed Res Ctr, Krasnoyarsk 660036, Russia; Siberian Fed Univ, Inst Space & Informat Technol, Dept High Performance Comp, Krasnoyarsk 660074, Russia | |
Контакты автора | Aksyonova Anastasiya I.: Siberian Fed Univ, Inst Fundamental Biol & Biotechnol, Lab Forest Genom, Genome Res & Educ Ctr, Krasnoyarsk 660036, Russia | |
Контакты автора | Putintseva Yuliya A.: Siberian Fed Univ, Inst Fundamental Biol & Biotechnol, Lab Forest Genom, Genome Res & Educ Ctr, Krasnoyarsk 660036, Russia | |
Контакты автора | Oreshkova Natalya V.: Siberian Fed Univ, Inst Fundamental Biol & Biotechnol, Lab Forest Genom, Genome Res & Educ Ctr, Krasnoyarsk 660036, Russia; Russian Acad Sci, Krasnoyarsk Sci Ctr, Siberian Branch, Lab Genom Res & Biotechnol,Fed Res Ctr, Krasnoyarsk 660036, Russia; Russian Acad Sci, Siberian Branch, VN Sukachev Inst Forest, Lab Forest Genet & Select, Krasnoyarsk 660036, Russia | |
Контакты автора | Feranchuk Sergey I.: Siberian Fed Univ, Inst Fundamental Biol & Biotechnol, Lab Forest Genom, Genome Res & Educ Ctr, Krasnoyarsk 660036, Russia; Natl Res Tech Univ, Dept Informat, Irkutsk 664074, Russia; Russian Acad Sci, Siberian Branch, Limnol Inst, Irkutsk 664033, Russia | |
Контакты автора | Kuzmin Dmitry A.: Siberian Fed Univ, Inst Fundamental Biol & Biotechnol, Lab Forest Genom, Genome Res & Educ Ctr, Krasnoyarsk 660036, Russia | |
Контакты автора | Pavlov Igor N.: Siberian Fed Univ, Inst Fundamental Biol & Biotechnol, Lab Forest Genom, Genome Res & Educ Ctr, Krasnoyarsk 660036, Russia; Russian Acad Sci, Siberian Branch, VN Sukachev Inst Forest, Lab Reforestat Mycol & Plant Pathol, Krasnoyarsk 660036, Russia; Reshetnev Siberian State Univ Sci & Technol, Dept Chem Technol Wood & Biotechnol, Krasnoyarsk 660049, Russia | |
Контакты автора | Litovka Yulia A.: Russian Acad Sci, Siberian Branch, VN Sukachev Inst Forest, Lab Reforestat Mycol & Plant Pathol, Krasnoyarsk 660036, Russia; Reshetnev Siberian State Univ Sci & Technol, Dept Chem Technol Wood & Biotechnol, Krasnoyarsk 660049, Russia | |
Контакты автора | Krutovsky Konstantin V.: Siberian Fed Univ, Inst Fundamental Biol & Biotechnol, Lab Forest Genom, Genome Res & Educ Ctr, Krasnoyarsk 660036, Russia; Georg August Univ Gottingen, Dept Forest Genet & Forest Tree Breeding, D-37077 Gottingen, Germany; George August Univ Gottingen, Ctr Integrated Breeding Res, D-37075 Gottingen, Germany; Russian Acad Sci, NI Vavilov Inst Gen Genet, Lab Populat Genet, Moscow 119333, Russia | |
Страницы | 534 | |
DOI | 10.1186/s12864-020-06964-6 | |
Журнал | BMC genomics | |
Квартиль журнала в Scopus | да | |
Квартиль журнала в Web of Science | да | |
Шифр в ИРБИС | 739911366-123115550 |