Sequencing the Genomes of the First Terrestrial Fungal Lineages: What Have We Learned?
Sequencing the Genomes of the First Terrestrial Fungal Lineages: What Have We Learned?
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DOI：
10.3390/microorganisms11071830
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发表时间：
2023-07-18
期刊：
影响因子：
4.5
通讯作者：
Stajich, Jason E.
中科院分区：
文献类型：
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作者：
Gryganskyi, Andrii P.;Golan, Jacob;Muszewska, Anna;Idnurm, Alexander;Dolatabadi, Somayeh;Mondo, Stephen J.;Kutovenko, Vira B.;Kutovenko, Volodymyr O.;Gajdeczka, Michael T.;Anishchenko, Iryna M.;Pawlowska, Julia;Tran, Ngoc Vinh;Ebersberger, Ingo;Voigt, Kerstin;Wang, Yan;Chang, Ying;Pawlowska, Teresa E.;Heitman, Joseph;Vilgalys, Rytas;Bonito, Gregory;Benny, Gerald L.;Smith, Matthew E.;Reynolds, Nicole;James, Timothy Y.;Grigoriev, Igor V.;Spatafora, Joseph W.;Stajich, Jason E.
正如 1996 年报道的那样，第一个对真核生物进行基因组测序的是酿酒酵母，但 10 多年前，接合菌真菌（目前属于毛霉菌门和动物真菌门的早期分化陆生真菌）才被测序。德莱马根霉的基因组于 2008 年完成；目前，超过1000个接合菌基因组已被测序。这些早期分化的陆生真菌的基因组数据揭示了两个主要分支（主要是植物相关的腐生和菌根毛霉菌门）与主要是真菌寄生或动物相关的寄生虫和动物菌门中的共生体之间的深层系统发育分离。基因组研究为这些真菌如何进化以应对陆地生活的挑战提供了许多有价值的见解，包括适应光和重力、菌丝生长的发育以及与第一批陆地植物的共存。基因组序列数据促进了基因组结构的研究，包括基因组复制和水平基因转移事件的历史、交配型基因座的分布和组织、rDNA 基因和转座元件、甲基化过程以及可用于各种工业应用的基因。在土壤腐生菌和病原真菌中也检测到了致病基因和专门的次生代谢物。在几个接合菌基因组计划中发现了新的内共生细菌和病毒。总体而言，基因组信息有助于解决大量研究问题，从接合菌在生命进化树和自然生态系统中的位置，到应用生物技术和医学问题。
The first genome sequenced of a eukaryotic organism was for Saccharomyces cerevisiae, as reported in 1996, but it was more than 10 years before any of the zygomycete fungi, which are the early-diverging terrestrial fungi currently placed in the phyla Mucoromycota and Zoopagomycota, were sequenced. The genome for Rhizopus delemar was completed in 2008; currently, more than 1000 zygomycete genomes have been sequenced. Genomic data from these early-diverging terrestrial fungi revealed deep phylogenetic separation of the two major clades—primarily plant—associated saprotrophic and mycorrhizal Mucoromycota versus the primarily mycoparasitic or animal-associated parasites and commensals in the Zoopagomycota. Genomic studies provide many valuable insights into how these fungi evolved in response to the challenges of living on land, including adaptations to sensing light and gravity, development of hyphal growth, and co-existence with the first terrestrial plants. Genome sequence data have facilitated studies of genome architecture, including a history of genome duplications and horizontal gene transfer events, distribution and organization of mating type loci, rDNA genes and transposable elements, methylation processes, and genes useful for various industrial applications. Pathogenicity genes and specialized secondary metabolites have also been detected in soil saprobes and pathogenic fungi. Novel endosymbiotic bacteria and viruses have been discovered during several zygomycete genome projects. Overall, genomic information has helped to resolve a plethora of research questions, from the placement of zygomycetes on the evolutionary tree of life and in natural ecosystems, to the applied biotechnological and medical questions.
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影响因子：
3.3
作者：
Chang Y;Wang S;Sekimoto S;Aerts AL;Choi C;Clum A;LaButti KM;Lindquist EA;Yee Ngan C;Ohm RA;Salamov AA;Grigoriev IV;Spatafora JW;Berbee ML
通讯作者：
Berbee ML
DOI：
10.1073/pnas.2110669118
发表时间：
2021-09-14
影响因子：
11.1
作者：
Büttner H;Niehs SP;Vandelannoote K;Cseresnyés Z;Dose B;Richter I;Gerst R;Figge MT;Stinear TP;Pidot SJ;Hertweck C
通讯作者：
Hertweck C
DOI：
10.1007/978-3-319-29137-6_5
发表时间：
2016-01-01
期刊：
BIOLOGY OF MICROFUNGI
影响因子：
--
作者：
Benny, Gerald L.;Smith, Matthew E.;White, Merlin M.
通讯作者：
White, Merlin M.
影响因子：
3.7
作者：
Muszewska A;Steczkiewicz K;Ginalski K
通讯作者：
Ginalski K
影响因子：
1.7
作者：
Bankevich, Anton;Nurk, Sergey;Pevzner, Pavel A.
通讯作者：
Pevzner, Pavel A.