Genome size evolution of the extant lycophytes and ferns

doi:10.1016/j.pld.2021.11.007

	Genome size evolution of the extant lycophytes and ferns
	Wang, Fa-Guo ; Wang, Ai-Hua ; Bai, Cheng-Ke ; Jin, Dong-Mei ; Nie, Li-Yun ; Harris, A. J.; Che, Le ; Wang, Juan-Juan ; Li, Shi-Yu ; Xu, Lei ; Shen, Hui ; Gu, Yu-Feng ; Shang, Hui ; Duan, Lei ; Zhang, Xian-Chun; Chen, Hong-Feng ; Yan, Yue-Hong
	2022
发表期刊	PLANT DIVERSITY
ISSN	2096-2703
卷号	44 期号:2 页码:141-152
摘要	Ferns and lycophytes have remarkably large genomes. However, little is known about how their genome size evolved in fern lineages. To explore the origins and evolution of chromosome numbers and genome size in ferns, we used flow cytometry to measure the genomes of 240 species (255 samples) of extant ferns and lycophytes comprising 27 families and 72 genera, of which 228 species (242 samples) represent new reports. We analyzed correlations among genome size, spore size, chromosomal features, phylogeny, and habitat type preference within a phylogenetic framework. We also applied ANOVA and multinomial logistic regression analysis to preference of habitat type and genome size. Using the phylogeny, we conducted ancestral character reconstruction for habitat types and tested whether genome size changes simultaneously with shifts in habitat preference. We found that 2C values had weak phylogenetic signal, whereas the base number of chromosomes (x) had a strong phylogenetic signal. Furthermore, our analyses revealed a positive correlation between genome size and chromosome traits, indicating that the base number of chromosomes (x), chromosome size, and polyploidization may be primary contributors to genome expansion in ferns and lycophytes. Genome sizes in different habitat types varied significantly and were significantly correlated with habitat types; specifically, multinomial logistic regression indicated that species with larger 2C values were more likely to be epiphytes. Terrestrial habitat is inferred to be ancestral for both extant ferns and lycophytes, whereas transitions to other habitat types occurred as the major clades emerged. Shifts in habitat types appear be followed by periods of genomic stability. Based on these results, we inferred that habitat type changes and multiple whole-genome duplications have contributed to the formation of large genomes of ferns and their allies during their evolutionary history. Copyright ?? 2022 Kunming Institute of Botany, Chinese Academy of Sciences. Publishing services by Elsevier B.V. on behalf of KeAi Communications Co. Ltd. This is an open access article under the CC BY NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).
关键词	Genome size Ferns Chromosome numbers Habitat type Whole-genome duplications Evolution
学科领域	Plant Sciences
DOI	10.1016/j.pld.2021.11.007
收录类别	SCI
语种	英语
WOS关键词	NUCLEAR-DNA CONTENT ; SPORE MORPHOLOGY ; ENVIRONMENTAL-FACTORS ; FLOW-CYTOMETRY ; CELL-SIZE ; PTERIDOPHYTES ; GENUS ; SELAGINELLA ; DYNAMICS ; GENETICS
WOS研究方向	Science Citation Index Expanded (SCI-EXPANDED)
WOS记录号	WOS:000798440100003
出版者	KEAI PUBLISHING LTD
文献子类	Article
出版地	BEIJING
EISSN	2468-2659
资助机构	National Natural Science Foundation of China [31870188, 31800174, 31700172, 41571056] ; Shanghai Landscaping and City Appearance Administrative Bureau of China [G182411] ; Strategic Priority Research Program of the Chinese Academy of Sciences [XDA13020603, XDA13020500] ; Guangdong Natural Science Foundation [2015A030308015]
作者邮箱	h.f.chen@scbg.ac.cn ; yhyan@sibs.ac.cn
作品OA属性	gold, Green Published
引用统计	被引频次：6[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://ir.ibcas.ac.cn/handle/2S10CLM1/28501
专题	系统与进化植物学国家重点实验室
作者单位	1.[Wang, Fa-Guo 2.Wang, Ai-Hua 3.Nie, Li-Yun 4.Harris, A. J. 5.Li, Shi-Yu 6.Xu, Lei 7.Duan, Lei 8.Chinese Acad Sci, South China Bot Garden, Guangdong Prov Key Lab Appl Bot, Key Lab Plant Resources Conservat & Sustainable U, Guangzhou 510650, Peoples R China 9.[Bai, Cheng-Ke 10.Che, Le 11.Shaanxi Normal Univ, Coll Life Sci, Xian 710062, Peoples R China 12.[Jin, Dong-Mei 13.Shen, Hui 14.Gu, Yu-Feng 15.Shang, Hui 16.Shanghai Chenshan Bot Garden, Eastern China Conservat Ctr Wild Endangered Plant, Shanghai 201602, Peoples R China 17.Nanning Normal Univ, Minist Educ, Key Lab Environm Change & Resources Use Beibu Gul, Nanning 530001, Peoples R China 18.[Harris, A. J.] Oberlin Coll, Dept Biol, Oberlin, OH 44074 USA 19.Chinese Acad Sci, Inst Bot, State Key Lab Systemat & Evolutionary Bot, Beijing 100093, Peoples R China 20.[Gu, Yu-Feng 21.Natl Orchid Conservat Ctr China, Key Lab Natl Forestry & Grassland Adm Orchid Cons, Shenzhen 518114, Peoples R China 22.Orchid Conservat & Res Ctr Shenzhen, Shenzhen 518114, Peoples R China 23.Harbin Normal Univ, Life Sci & Technol Coll, Harbin 150025, Peoples R China
推荐引用方式 GB/T 7714	Wang, Fa-Guo,Wang, Ai-Hua,Bai, Cheng-Ke,et al. Genome size evolution of the extant lycophytes and ferns[J]. PLANT DIVERSITY,2022,44(2):141-152.
APA	Wang, Fa-Guo.,Wang, Ai-Hua.,Bai, Cheng-Ke.,Jin, Dong-Mei.,Nie, Li-Yun.,...&Yan, Yue-Hong.(2022).Genome size evolution of the extant lycophytes and ferns.PLANT DIVERSITY,44(2),141-152.
MLA	Wang, Fa-Guo,et al."Genome size evolution of the extant lycophytes and ferns".PLANT DIVERSITY 44.2(2022):141-152.

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