Phylotranscriptomic Analyses of Mycoheterotrophic Monocots Show a Continuum of Convergent Evolutionary Changes in Expressed Nuclear Genes From Three Independent Nonphotosynthetic Lineages.

Autor:	Timilsena PR; Department of Biology, The Pennsylvania State University, University Park, Pennsylvania., Barrett CF; Department of Biology, West Virginia University, Morgantown, West Virginia., Piñeyro-Nelson A; Departamento de Producción Agrícola y Animal, Universidad Autónoma Metropolitana-Xochimilco, Mexico City, Mexico.; Centro de Ciencias de la Complejidad, Universidad Nacional Autónoma de México, Mexico City, Mexico., Wafula EK; Department of Biology, The Pennsylvania State University, University Park, Pennsylvania., Ayyampalayam S; Department of Plant Biology, University of Georgia, Athens, Georgia, 3060., McNeal JR; Department of Ecology, Evolution, and Organismal Biology, Kennesaw State University, Georgia., Yukawa T; Tsukuba Botanical Garden, National Museum of Nature and Science, 1-1, Amakubo 4, Tsukuba, 305-0005, Japan., Givnish TJ; Department of Botany, University of Wisconsin-Madison, Madison, Wisconsin., Graham SW; Department of Botany, University of British Columbia, Vancouver, British Columbia, V6T 1Z4Canada., Pires JC; Division of Biological Sciences, University of Missouri-Columbia, Columbia, Missouri., Davis JI; School of Integrative Plant Sciences and L.H. Bailey Hortorium, Cornell University, Ithaca, New York, 1485., Ané C; Department of Botany, University of Wisconsin-Madison, Madison, Wisconsin.; Department of Statistics, University of Wisconsin-Madison, Madison, Wisconsin., Stevenson DW; New York Botanical Garden, New York, 1045., Leebens-Mack J; Department of Plant Biology, University of Georgia, Athens, Georgia, 3060., Martínez-Salas E; Departmento de Botánica, Instituto de Biología, Universidad Nacional Autónoma de México, Mexico City, México., Álvarez-Buylla ER; Departamento de Ecología Funcional, Instituto de Ecología, Universidad Nacional Autónoma de México, Mexico City, Mexico.; Centro de Ciencias de la Complejidad, Universidad Nacional Autónoma de México, Mexico City, Mexico., dePamphilis CW; Department of Biology, The Pennsylvania State University, University Park, Pennsylvania.
Jazyk:	angličtina
Zdroj:	Genome biology and evolution [Genome Biol Evol] 2023 Jan 04; Vol. 15 (1).
DOI:	10.1093/gbe/evac183
Abstrakt:	Mycoheterotrophy is an alternative nutritional strategy whereby plants obtain sugars and other nutrients from soil fungi. Mycoheterotrophy and associated loss of photosynthesis have evolved repeatedly in plants, particularly in monocots. Although reductive evolution of plastomes in mycoheterotrophs is well documented, the dynamics of nuclear genome evolution remains largely unknown. Transcriptome datasets were generated from four mycoheterotrophs in three families (Orchidaceae, Burmanniaceae, Triuridaceae) and related green plants and used for phylogenomic analyses to resolve relationships among the mycoheterotrophs, their relatives, and representatives across the monocots. Phylogenetic trees based on 602 genes were mostly congruent with plastome phylogenies, except for an Asparagales + Liliales clade inferred in the nuclear trees. Reduction and loss of chlorophyll synthesis and photosynthetic gene expression and relaxation of purifying selection on retained genes were progressive, with greater loss in older nonphotosynthetic lineages. One hundred seventy-four of 1375 plant benchmark universally conserved orthologous genes were undetected in any mycoheterotroph transcriptome or the genome of the mycoheterotrophic orchid Gastrodia but were expressed in green relatives, providing evidence for massively convergent gene loss in nonphotosynthetic lineages. We designate this set of deleted or undetected genes Missing in Mycoheterotrophs (MIM). MIM genes encode not only mainly photosynthetic or plastid membrane proteins but also a diverse set of plastid processes, genes of unknown function, mitochondrial, and cellular processes. Transcription of a photosystem II gene (psb29) in all lineages implies a nonphotosynthetic function for this and other genes retained in mycoheterotrophs. Nonphotosynthetic plants enable novel insights into gene function as well as gene expression shifts, gene loss, and convergence in nuclear genomes. (© The Author(s) 2022. Published by Oxford University Press on behalf of Society for Molecular Biology and Evolution.)
Databáze:	MEDLINE
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