Mycobiont-specific primers facilitate the amplification of mitochondrial small subunit ribosomal DNA: a focus on the lichenized fungal genus Melanelia (Ascomycota, Parmeliaceae) in Iceland

doi:10.3897/mycokeys.96.100037

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	Mycobiont-specific primers facilitate the amplification of mitochondrial small subunit ribosomal DNA: a focus on the lichenized fungal genus Melanelia (Ascomycota, Parmeliaceae) in Iceland
	Xu,Maonian; Liu,Yingkui; Moller,Erik; LaGreca,Scott; Moya,Patricia; Wang,Xinyu; Timdal,Einar; de Boer,Hugo; Barreno,Eva; Wang,Lisong; Thues,Holger; Andresson,Olafur; Magnusson,Kristinn Petur; Olafsdottir,Elin Soffia; Heidmarsson,Starri
	2023
发表期刊	MYCOKEYS
ISSN	1314-4049
期号	96 页码:57-75
摘要	The fungal mitochondrial small subunit (mtSSU) ribosomal DNA is one of the most commonly used loci for phylogenetic analysis of lichen-forming fungi, but their primer specificity to mycobionts has not been evaluated. The current study aimed to design mycobiont-specific mtSSU primers and highlights their utility with an example from the saxicolous lichen-forming fungal genus Melanelia Essl. in Iceland. The study found a 12.5% success rate (3 out of 24 specimens with good-quality mycobiont mtSSU sequences) using universal primers (i.e. mrSSU1 and mrSSU3R), not including off-target amplification of environ-mental fungi, e.g. Cladophialophora carrionii and Lichenothelia convexa. New mycobiont-specific primers (mt-SSU-581-5' and mt-SSU-1345-3') were designed by targeting mycobiont-specific nucleotide sites in comparison with environmental fungal sequences, and assessed for mycobiont primer specificity using in silico PCR. The new mycobiont-specific mtSSU primers had a success rate of 91.7% (22 out of 24 speci-mens with good-quality mycobiont mtSSU sequences) on the studied Melanelia specimens. Additional testing confirmed the specificity and yielded amplicons from 79 specimens of other Parmeliaceae myco-biont lineages. This study highlights the effectiveness of designing mycobiont-specific primers for studies on lichen identification, barcoding and phylogenetics.
关键词	Melanelia mtSSU Parmeliaceae PCR primer design INTERNAL TRANSCRIBED SPACER PCR PRIMERS REGION SEQUENCE
学科领域	Mycology
DOI	10.3897/mycokeys.96.100037
WOS记录号	WOS:000964240800001
引用统计
文献类型	期刊论文
条目标识符	http://ir.kib.ac.cn/handle/151853/75060
专题	中国科学院昆明植物研究所
推荐引用方式 GB/T 7714	Xu,Maonian,Liu,Yingkui,Moller,Erik,et al. Mycobiont-specific primers facilitate the amplification of mitochondrial small subunit ribosomal DNA: a focus on the lichenized fungal genus Melanelia (Ascomycota, Parmeliaceae) in Iceland[J]. MYCOKEYS,2023(96):57-75.
APA	Xu,Maonian.,Liu,Yingkui.,Moller,Erik.,LaGreca,Scott.,Moya,Patricia.,...&Heidmarsson,Starri.(2023).Mycobiont-specific primers facilitate the amplification of mitochondrial small subunit ribosomal DNA: a focus on the lichenized fungal genus Melanelia (Ascomycota, Parmeliaceae) in Iceland.MYCOKEYS(96),57-75.
MLA	Xu,Maonian,et al."Mycobiont-specific primers facilitate the amplification of mitochondrial small subunit ribosomal DNA: a focus on the lichenized fungal genus Melanelia (Ascomycota, Parmeliaceae) in Iceland".MYCOKEYS .96(2023):57-75.

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