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Perotto S, Balestrini R. At the core of the endomycorrhizal symbioses: intracellular fungal structures in orchid and arbuscular mycorrhiza. New Phytol 2024; 242:1408-1416. [PMID: 37884478 DOI: 10.1111/nph.19338] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/07/2023] [Accepted: 09/27/2023] [Indexed: 10/28/2023]
Abstract
Arbuscular (AM) and orchid (OrM) mycorrhiza are the most widespread mycorrhizal symbioses among flowering plants, formed by distinct fungal and plant species. They are both endosymbioses because the fungal hyphae can enter inside the plant cell to develop intracellular fungal structures that are surrounded by the plant membrane. The symbiotic plant-fungus interface is considered to be the major site of nutrient transfer to the host plant. We summarize recent data on nutrient transfer in OrM and compare the development and function of the arbuscules formed in AM and the pelotons formed in OrM in order to outline differences and conserved traits. We further describe the unexpected similarities in the form and function of the intracellular mycorrhizal fungal structures observed in orchids and in the roots of mycoheterotrophic plants forming AM. We speculate that these similarities may be the result of convergent evolution of mycorrhizal types in mycoheterotrophic plants and highlight knowledge gaps and new research directions to explore this scenario.
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Affiliation(s)
- Silvia Perotto
- Dipartimento di Scienze della Vita e Biologia dei Sistemi, Università degli Studi di Torino, Viale Mattioli 25, Torino, 10125, Italy
| | - Raffaella Balestrini
- Consiglio Nazionale delle Ricerche-Istituto per la Protezione Sostenibile delle Piante (IPSP), Strada delle Cacce 73, 10135, Torino, Italy
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2
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Suetsugu K. A novel nursery pollination system between a mycoheterotrophic orchid and mushroom-feeding flies. Ecology 2023; 104:e4152. [PMID: 37610832 DOI: 10.1002/ecy.4152] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 05/05/2023] [Revised: 06/25/2023] [Accepted: 07/17/2023] [Indexed: 08/25/2023]
Affiliation(s)
- Kenji Suetsugu
- Department of Biology, Graduate School of Science, Kobe University, Kobe, Japan
- Institute for Advanced Research, Kobe University, Kobe, Japan
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3
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Zahn FE, Söll E, Chapin TK, Wang D, Gomes SIF, Hynson NA, Pausch J, Gebauer G. Novel insights into orchid mycorrhiza functioning from stable isotope signatures of fungal pelotons. New Phytol 2023. [PMID: 37343598 DOI: 10.1111/nph.18991] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Subscribe] [Scholar Register] [Received: 12/20/2022] [Accepted: 04/29/2023] [Indexed: 06/23/2023]
Abstract
Stable isotope signatures of fungal sporocarps have been instrumental in identifying carbon gains of chlorophyllous orchids from a fungal source. Yet, not all mycorrhizal fungi produce macroscopic sporocarps and frequently fungi of different taxa occur in parallel in orchid roots. To overcome this obstacle, we investigated stable isotope signatures of fungal pelotons extracted from orchid roots and compared these data to the respective orchid and reference plant tissues. Anoectochilus sandvicensis and Epipactis palustris represented specialized or unspecialized rhizoctonia-associated orchids. Epipactis atrorubens and Epipactis leptochila are orchids considered ectomycorrhiza-associated with different preferences for Basidio- and Ascomycota. 13 C enrichment of rhizoctonia pelotons was minor compared with plant tissues and significantly lower than enrichments of pelotons from ectomycorrhizal Epipactis species. 15 N values of pelotons from E. leptochila and E. atrorubens showed similar patterns as known for respective sporocarps of ectomycorrhizal Ascomycota and Basidiomycota, however, with an offset towards lower 15 N enrichments and nitrogen concentrations. Our results suggest an explicit fungal nutrition source of orchids associated with ectomycorrhizal fungi, whereas the low 13 C enrichment in rhizoctonia-associated orchids and fungal pelotons hamper the detection of carbon gains from fungal partners. 15 N isotopic pattern of orchids further suggests a selective transfer of 15 N-enriched protein-nitrogen into orchids.
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Affiliation(s)
- Franziska E Zahn
- BayCEER - Laboratory of Isotope Biogeochemistry, University of Bayreuth, Bayreuth, 95440, Germany
| | - Erik Söll
- BayCEER - Laboratory of Isotope Biogeochemistry, University of Bayreuth, Bayreuth, 95440, Germany
| | - Thomas K Chapin
- Pacific Biosciences Research Center, University of Hawai'i at Mānoa, Honolulu, HI, 96822, USA
| | - Deyi Wang
- Naturalis Biodiversity Center, Leiden, 2332 AA, the Netherlands
| | - Sofia I F Gomes
- Institute of Biology, Leiden University, Leiden, 2333 BE, the Netherlands
| | - Nicole A Hynson
- Pacific Biosciences Research Center, University of Hawai'i at Mānoa, Honolulu, HI, 96822, USA
| | - Johanna Pausch
- Department of Agroecology, Bayreuth Center of Ecology and Environmental Research (BayCEER), University of Bayreuth, Bayreuth, 95440, Germany
| | - Gerhard Gebauer
- BayCEER - Laboratory of Isotope Biogeochemistry, University of Bayreuth, Bayreuth, 95440, Germany
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4
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Gomes SIF, Giesemann P, Klink S, Hunt C, Suetsugu K, Gebauer G. Stable isotope natural abundances of fungal hyphae extracted from the roots of arbuscular mycorrhizal mycoheterotrophs and rhizoctonia-associated orchids. New Phytol 2023. [PMID: 37343595 DOI: 10.1111/nph.18990] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [Grants] [Subscribe] [Scholar Register] [Received: 12/20/2022] [Accepted: 04/29/2023] [Indexed: 06/23/2023]
Affiliation(s)
- Sofia I F Gomes
- Laboratory of Isotope Biogeochemistry, Bayreuth Center of Ecology and Environmental Research (BayCEER), University of Bayreuth, Bayreuth, 95440, Germany
| | - Philipp Giesemann
- Laboratory of Isotope Biogeochemistry, Bayreuth Center of Ecology and Environmental Research (BayCEER), University of Bayreuth, Bayreuth, 95440, Germany
| | - Saskia Klink
- Department of Agroecology, Bayreuth Center of Ecology and Environmental Research (BayCEER), University of Bayreuth, Universitätsstraße 30, Bayreuth, 95440, Germany
| | - Colin Hunt
- Greenlife Industry Australia, PO Box 68, Kiama, NSW, 2533, Australia
| | - Kenji Suetsugu
- Department of Biology, Graduate School of Science, Kobe University, 1-1 Rokkodai, Nada-ku, Kobe, 657-8501, Japan
- The Institute for Advanced Research, Kobe University, 1-1 Rokkodai, Nada-ku, Kobe, 657-8501, Japan
| | - Gerhard Gebauer
- Laboratory of Isotope Biogeochemistry, Bayreuth Center of Ecology and Environmental Research (BayCEER), University of Bayreuth, Bayreuth, 95440, Germany
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5
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Cai L. Rethinking convergence in plant parasitism through the lens of molecular and population genetic processes. Am J Bot 2023; 110:e16174. [PMID: 37154532 DOI: 10.1002/ajb2.16174] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/29/2022] [Revised: 04/04/2023] [Accepted: 04/05/2023] [Indexed: 05/10/2023]
Abstract
The autotrophic lifestyle of photosynthetic plants has profoundly shaped their body plan, physiology, and gene repertoire. Shifts to parasitism and heterotrophy have evolved at least 12 times in more than 4000 species, and this transition has consequently left major evolutionary footprints among these parasitic lineages. Features that are otherwise rare at the molecular level and beyond have evolved repetitively, including reduced vegetative bodies, carrion-mimicking during reproduction, and the incorporation of alien genetic material. Here, I propose an integrated conceptual model, referred to as the funnel model, to define the general evolutionary trajectory of parasitic plants and provide a mechanistic explanation for their convergent evolution. This model connects our empirical understanding of gene regulatory networks in flowering plants with classical theories of molecular and population genetics. It emphasizes that the cascading effects brought about by the loss of photosynthesis may be a major force constraining the physiological capacity of parasitic plants and shaping their genomic landscapes. Here I review recent studies on the anatomy, physiology, and genetics of parasitic plants that lend support to this photosynthesis-centered funnel model. Focusing on nonphotosynthetic holoparasites, I elucidate how they may inevitably reach an evolutionary terminal status (i.e., extinction) and highlight the utility of a general, explicitly described and falsifiable model for future studies of parasitic plants.
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Affiliation(s)
- Liming Cai
- Department of Integrative Biology, The University of Texas at Austin, Austin, TX, USA
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6
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Suetsugu K, Fukushima K, Makino T, Ikematsu S, Sakamoto T, Kimura S. Transcriptomic heterochrony and completely cleistogamous flower development in the mycoheterotrophic orchid Gastrodia. New Phytol 2023; 237:323-338. [PMID: 36110047 DOI: 10.1111/nph.18495] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/02/2022] [Accepted: 09/09/2022] [Indexed: 06/15/2023]
Abstract
Cleistogamy, in which plants can reproduce via self-fertilization within permanently closed flowers, has evolved in > 30 angiosperm lineages; however, consistent with Darwin's doubts about its existence, complete cleistogamy - the production of only cleistogamous flowers - has rarely been recognized. Thus far, the achlorophyllous orchid genus, Gastrodia, is the only known genus with several plausible completely cleistogamous species. Here, we analyzed the floral developmental transcriptomes of two recently evolved, completely cleistogamous Gastrodia species and their chasmogamous sister species to elucidate the possible changes involved in producing common cleistogamous traits. The ABBA-BABA test did not support introgression and protein sequence convergence as evolutionary mechanisms leading to cleistogamy, leaving convergence in gene expression as a plausible mechanism. Regarding transcriptomic differentiation, the two cleistogamous species had common modifications in the expression of developmental regulators, exhibiting a gene family-wide signature of convergent expression changes in MADS-box genes. Our transcriptomic pseudotime analysis revealed a prolonged juvenile state and eventual maturation, a heterochronic pattern consistent with partial neoteny, in cleistogamous flower development. These findings indicate that transcriptomic partial neoteny, arising from changes in the expression of conserved developmental regulators, might have contributed to the rapid and repeated evolution of cleistogamous flowers in Gastrodia.
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Affiliation(s)
- Kenji Suetsugu
- Department of Biology, Graduate School of Science, Kobe University, 1-1 Rokkodai, Nada-ku, Kobe, 657-8501, Japan
| | - Kenji Fukushima
- Institute for Molecular Plant Physiology and Biophysics, University of Würzburg, Julius-von-Sachs Platz 2, 97082, Würzburg, Germany
| | - Takashi Makino
- Graduate School of Life Sciences, Tohoku University, 6-3, Aramaki Aza Aoba, Aoba-ku, Sendai, 980-8578, Japan
| | - Shuka Ikematsu
- Faculty of Life Sciences, Kyoto Sangyo University, Kamigamo-motoyama, Kita-ku, Kyoto, 603-8555, Japan
- Center for Plant Sciences, Kyoto Sangyo University, Kamigamo-motoyama, Kita-ku, Kyoto, 603-8555, Japan
| | - Tomoaki Sakamoto
- Faculty of Life Sciences, Kyoto Sangyo University, Kamigamo-motoyama, Kita-ku, Kyoto, 603-8555, Japan
- Center for Plant Sciences, Kyoto Sangyo University, Kamigamo-motoyama, Kita-ku, Kyoto, 603-8555, Japan
| | - Seisuke Kimura
- Faculty of Life Sciences, Kyoto Sangyo University, Kamigamo-motoyama, Kita-ku, Kyoto, 603-8555, Japan
- Center for Plant Sciences, Kyoto Sangyo University, Kamigamo-motoyama, Kita-ku, Kyoto, 603-8555, Japan
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7
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Timilsena PR, Barrett CF, Piñeyro-Nelson A, Wafula EK, Ayyampalayam S, McNeal JR, Yukawa T, Givnish TJ, Graham SW, Pires JC, Davis JI, Ané C, Stevenson DW, Leebens-Mack J, Martínez-Salas E, Álvarez-Buylla ER, dePamphilis CW. Phylotranscriptomic Analyses of Mycoheterotrophic Monocots Show a Continuum of Convergent Evolutionary Changes in Expressed Nuclear Genes From Three Independent Nonphotosynthetic Lineages. Genome Biol Evol 2022; 15:6965378. [PMID: 36582124 PMCID: PMC9887272 DOI: 10.1093/gbe/evac183] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2021] [Revised: 12/13/2022] [Accepted: 12/18/2022] [Indexed: 12/31/2022] Open
Abstract
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.
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Affiliation(s)
- Prakash Raj Timilsena
- Department of Biology, The Pennsylvania State University, University Park, Pennsylvania
| | - Craig F Barrett
- Department of Biology, West Virginia University, Morgantown, West Virginia
| | - Alma Piñeyro-Nelson
- 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
| | - Eric K Wafula
- Department of Biology, The Pennsylvania State University, University Park, Pennsylvania
| | | | - Joel R McNeal
- Department of Ecology, Evolution, and Organismal Biology, Kennesaw State University, Georgia
| | - Tomohisa Yukawa
- Tsukuba Botanical Garden, National Museum of Nature and Science, 1-1, Amakubo 4, Tsukuba, 305-0005, Japan
| | - Thomas J Givnish
- Department of Botany, University of Wisconsin-Madison, Madison, Wisconsin
| | - Sean W Graham
- Department of Botany, University of British Columbia, Vancouver, British Columbia, V6T 1Z4Canada
| | - J Chris Pires
- Division of Biological Sciences, University of Missouri–Columbia, Columbia, Missouri
| | - Jerrold I Davis
- School of Integrative Plant Sciences and L.H. Bailey Hortorium, Cornell University, Ithaca, New York, 1485
| | - Cécile Ané
- Department of Botany, University of Wisconsin-Madison, Madison, Wisconsin,Department of Statistics, University of Wisconsin–Madison, Madison, Wisconsin
| | | | - Jim Leebens-Mack
- Department of Plant Biology, University of Georgia, Athens, Georgia, 3060
| | - Esteban Martínez-Salas
- Departmento de Botánica, Instituto de Biología, Universidad Nacional Autónoma de México, Mexico City, México
| | - Elena R Álvarez-Buylla
- 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
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8
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Gomes SIF, Fortuna MA, Bascompte J, Merckx VSFT. Mycoheterotrophic plants preferentially target arbuscular mycorrhizal fungi that are highly connected to autotrophic plants. New Phytol 2022; 235:2034-2045. [PMID: 35706373 PMCID: PMC9539982 DOI: 10.1111/nph.18310] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/10/2022] [Accepted: 04/19/2022] [Indexed: 06/15/2023]
Abstract
How mycoheterotrophic plants that obtain carbon and soil nutrients from fungi are integrated in the usually mutualistic arbuscular mycorrhizal networks is unknown. Here, we compare autotrophic and mycoheterotrophic plant associations with arbuscular mycorrhizal fungi and use network analysis to investigate interaction preferences in the tripartite network. We sequenced root tips from autotrophic and mycoheterotrophic plants to assemble the combined tripartite network between autotrophic plants, mycorrhizal fungi and mycoheterotrophic plants. We compared plant-fungi interactions between mutualistic and antagonist networks, and searched for a diamond-like module defined by a mycoheterotrophic and an autotrophic plant interacting with the same pair of fungi to investigate whether pairs of fungi simultaneously linked to plant species from each interaction type were overrepresented throughout the network. Mycoheterotrophic plants as a group interacted with a subset of the fungi detected in autotrophs but are indirectly linked to all autotrophic plants, and fungi with a high overlap in autotrophic partners tended to interact with a similar set of mycoheterotrophs. Moreover, pairs of fungi sharing the same mycoheterotrophic and autotrophic plant species are overrepresented in the network. We hypothesise that the maintenance of antagonistic interactions is maximised by targeting well linked mutualistic fungi, thereby minimising the risk of carbon supply shortages.
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Affiliation(s)
- Sofia I. F. Gomes
- Above‐Belowground Interactions Group, Institute of BiologyLeiden UniversitySylviusweg 722333 BELeidenthe Netherlands
- Naturalis Biodiversity CenterDarwinweg 22333 CRLeidenthe Netherlands
| | - Miguel A. Fortuna
- Department of Evolutionary Biology and Environmental StudiesUniversity of ZurichCH‐8057ZurichSwitzerland
| | - Jordi Bascompte
- Department of Evolutionary Biology and Environmental StudiesUniversity of ZurichCH‐8057ZurichSwitzerland
| | - Vincent S. F. T. Merckx
- Naturalis Biodiversity CenterDarwinweg 22333 CRLeidenthe Netherlands
- Department of Evolutionary and Population Biology, Institute for Biodiversity and Ecosystem DynamicsUniversity of AmsterdamPO Box 942401090 GEAmsterdamthe Netherlands
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9
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Suetsugu K, Okada H, Hirota SK, Suyama Y. Evolutionary history of mycorrhizal associations between Japanese Oxygyne (Thismiaceae) species and Glomeraceae fungi. New Phytol 2022; 235:836-841. [PMID: 35445414 DOI: 10.1111/nph.18163] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/18/2022] [Accepted: 04/07/2022] [Indexed: 06/14/2023]
Affiliation(s)
- Kenji Suetsugu
- Department of Biology, Graduate School of Science, Kobe University, Kobe, 657-8501, Hyogo, Japan
| | - Hidehito Okada
- Department of Biology, Graduate School of Science, Kobe University, Kobe, 657-8501, Hyogo, Japan
| | - Shun K Hirota
- Field Science Center, Graduate School of Agricultural Science, Tohoku University, 232-3 Yomogida, Naruko-onsen, Osaki, Miyagi, 989-6711, Japan
| | - Yoshihisa Suyama
- Field Science Center, Graduate School of Agricultural Science, Tohoku University, 232-3 Yomogida, Naruko-onsen, Osaki, Miyagi, 989-6711, Japan
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10
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Ke BF, Wang GJ, Labiak PH, Rouhan G, Chen CW, Shepherd LD, Ohlsen DJ, Renner MAM, Karol KG, Li FW, Kuo LY. Systematics and Plastome Evolution in Schizaeaceae. Front Plant Sci 2022; 13:885501. [PMID: 35909781 PMCID: PMC9328107 DOI: 10.3389/fpls.2022.885501] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/28/2022] [Accepted: 06/06/2022] [Indexed: 06/15/2023]
Abstract
While the family Schizaeaceae (Schizaeales) represents only about 0.4% of the extant fern species diversity, it differs from other ferns greatly in gross morphologies, niche preferences, and life histories. One of the most notable features in this family is its mycoheterotrophic life style in the gametophytic stage, which appears to be associated with extensive losses of plastid genes. However, the limited number of sequenced plastomes, and the lack of a well-resolved phylogenetic framework of Schizaeaceae, makes it difficult to gain any further insight. Here, with a comprehensive sampling of ~77% of the species diversity of this family, we first inferred a plastid phylogeny of Schizaeaceae using three DNA regions. To resolve the deep relationships within this family, we then reconstructed a plastome-based phylogeny focusing on a selection of representatives that covered all the major clades. From this phylogenomic backbone, we traced the evolutionary histories of plastid genes and examined whether gene losses were associated with the evolution of gametophytic mycoheterotrophy. Our results reveal that extant Schizaeaceae is comprised of four major clades-Microschizaea, Actinostachys, Schizaea, and Schizaea pusilla. The loss of all plastid NADH-like dehydrogenase (ndh) genes was confirmed to have occurred in the ancestor of extant Schizaeaceae, which coincides with the evolution of mycoheterotrophy in this family. For chlorophyll biosynthesis genes (chl), the losses were interpreted as convergent in Schizaeaceae, and found not only in Actinostachys, a clade producing achlorophyllous gametophytes, but also in S. pusilla with chlorophyllous gametophytes. In addition, we discovered a previously undescribed but phylogenetically distinct species hidden in the Schizaea dichotoma complex and provided a taxonomic treatment and morphological diagnostics for this new species-Schizaea medusa. Finally, our phylogenetic results suggest that the current PPG I circumscription of Schizaea is non-monophyletic, and we therefore proposed a three-genus classification moving a subset of Schizaea species sensu PPG I to a third genus-Microschizaea.
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Affiliation(s)
- Bing-Feng Ke
- Institute of Molecular and Cellular Biology, National Tsing Hua University, Hsinchu, Taiwan
| | | | - Paulo H. Labiak
- Depto. de Botânica, Universidade Federal do Paraná, Curitiba, Brazil
| | - Germinal Rouhan
- Institut de Systématique, Evolution, Biodiversité (ISYEB), Muséum National d’Histoire Naturelle, EPHE, UA, CNRS, Sorbonne Université, Paris, France
- Department of Biology, University of Florida, Gainesville, FL, United States
| | - Cheng-Wei Chen
- Department of Life Science, Biodiversity Program, Taiwan International Graduate Program, Biodiversity Research Center, Academia Sinica and National Taiwan Normal University, Taipei, Taiwan
| | - Lara D. Shepherd
- Museum of New Zealand Te Papa Tongarewa, Wellington, New Zealand
| | | | | | - Kenneth G. Karol
- The Lewis B. and Dorothy Cullman Program for Molecular Systematics, New York Botanical Garden, Bronx, NY, United States
| | - Fay-Wei Li
- Boyce Thompson Institute, Ithaca, NY, United States
- Plant Biology Section, Cornell University, Ithaca, NY, United States
| | - Li-Yaung Kuo
- Institute of Molecular and Cellular Biology, National Tsing Hua University, Hsinchu, Taiwan
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11
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Suetsugu K, Matsubayashi J. Foliar chlorophyll concentration modulates the degree of fungal exploitation in a rhizoctonia-associated orchid. J Exp Bot 2022; 73:4204-4213. [PMID: 35312761 DOI: 10.1093/jxb/erac124] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/09/2021] [Accepted: 03/18/2022] [Indexed: 06/14/2023]
Abstract
Some green orchids obtain carbon from both mycobionts and photosynthesis at the adult stage. Intriguingly, these orchids can produce albino and, in rare cases, variegated phenotypes. Here, we studied a Platanthera hondoensis population with green, variegated, and albino individuals. Although its closely related Platanthera species are usually associated with non-ectomycorrhizal rhizoctonias, and several studies have failed to find evidence of trophic plasticity in rhizoctonia-associated orchids, variegated and albino P. hondoensis must possess a higher fungal dependency than green P. hondoensis. Therefore, we investigated whether (i) P. hondoensis is associated with non-ectomycorrhizal rhizoctonias and (ii) the degree of mycoheterotrophy (using 13C abundance as a proxy) correlates with the foliar chlorophyll concentration. High-throughput DNA sequencing revealed that all P. hondoensis phenotypes were dominantly associated with a rhizoctonia from Ceratobasidiaceae belonging to a clade distinct from recognized ectomycorrhizal clades. Regression analysis revealed a positive linear relationship between foliar chlorophyll concentration and the degree of mycoheterotrophy. This study strongly suggests that rhizoctonia-associated P. hondoensis can dynamically adjust fungal exploitation in response to photosynthetic carbon levels. Since rhizoctonia is the most common orchid mycorrhizal partner, trophic plasticity may be a widespread adaptive trait in green orchids.
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Affiliation(s)
- Kenji Suetsugu
- Department of Biology, Graduate School of Science, Kobe University, Kobe, Japan
| | - Jun Matsubayashi
- Department of Integrated Science and Engineering for Sustainable Societies, Faculty of Science and Engineering, Chuo University, Tokyo, Japan
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12
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Zahn FE, Lee YI, Gebauer G. Fungal association and root morphology shift stepwise during ontogenesis of orchid Cremastra appendiculata towards autotrophic nutrition. AoB Plants 2022; 14:plac021. [PMID: 35673361 PMCID: PMC9167560 DOI: 10.1093/aobpla/plac021] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/02/2022] [Accepted: 05/03/2022] [Indexed: 06/15/2023]
Abstract
The chlorophyllous, terrestrial orchid Cremastra appendiculata from East Asia is unique concerning its fungal mycorrhiza partners. The initially mycoheterotrophic protocorms exploit rather specialized non-rhizoctonia saprotrophic Psathyrellaceae. Adult individuals of this orchid species are either linked to Psathyrellaceae being partially mycoheterotrophic or form mycorrhiza with fungi of the ubiquitous saprotrophic rhizoctonia group. This study provides new insights on nutrition mode, subterranean morphology and fungal partners across different life stages of C. appendiculata. We compared different development stages of C. appendiculata to surrounding autotrophic reference plants based on multi-element natural abundance stable isotope analyses (δ13C, δ15N, δ2H, δ18O) and total N concentrations. Site- and sampling-time-independent enrichment factors of stable isotopes were used to reveal trophic strategies. We determined mycorrhizal fungi of C. appendiculata protocorm, seedling and adult samples using high-throughput DNA sequencing. We identified saprotrophic non-rhizoctonia Psathyrellaceae as dominant mycorrhizal fungi in protocorm and seedling rhizomes. In contrast, the roots of seedlings and mature C. appendiculata were mainly colonized with fungi belonging to the polyphyletic assembly of rhizoctonia (Ceratobasidium, Thanatephorus and Serendipitaceae). Mature C. appendiculata did not differ in isotopic signature from autotrophic reference plants suggesting a fully autotrophic nutrition mode. Characteristic of orchid specimens entirely relying on fungal nutrition, C. appendiculata protocorms were enriched in 15N, 13C and 2H compared to reference plants. Seedlings showed an intermediate isotopic signature, underpinning the differences in the fungal community depending on their subterranean morphology. In contrast to the suggestion that C. appendiculata is a partially mycoheterotrophic orchid species, we provide novel evidence that mature C. appendiculata with rhizoctonia mycobionts can be entirely autotrophic. Besides an environmentally driven variability among populations, we suggest high within-individual flexibility in nutrition and mycobionts of C. appendiculata, which is subject to the ontogenetic development stage.
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Affiliation(s)
- Franziska E Zahn
- Laboratory of Isotope Biogeochemistry, Bayreuth Center of Ecology and Environmental Research (BayCEER), University of Bayreuth, Universitätsstr. 30, 95440 Bayreuth, Germany
| | - Yung-I Lee
- Department of Life Science, National Taiwan University, Taipei 10617, Taiwan
- Institute of Ecology and Evolutionary Biology, National Taiwan University, Taipei 10617, Taiwan
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Selosse MA, Petrolli R, Mujica MI, Laurent L, Perez-Lamarque B, Figura T, Bourceret A, Jacquemyn H, Li T, Gao J, Minasiewicz J, Martos F. The Waiting Room Hypothesis revisited by orchids: were orchid mycorrhizal fungi recruited among root endophytes? Ann Bot 2022; 129:259-270. [PMID: 34718377 PMCID: PMC8835631 DOI: 10.1093/aob/mcab134] [Citation(s) in RCA: 23] [Impact Index Per Article: 11.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/10/2021] [Accepted: 10/25/2021] [Indexed: 05/17/2023]
Abstract
BACKGROUND As in most land plants, the roots of orchids (Orchidaceae) associate with soil fungi. Recent studies have highlighted the diversity of the fungal partners involved, mostly within Basidiomycotas. The association with a polyphyletic group of fungi collectively called rhizoctonias (Ceratobasidiaceae, Tulasnellaceae and Serendipitaceae) is the most frequent. Yet, several orchid species target other fungal taxa that differ from rhizoctonias by their phylogenetic position and/or ecological traits related to their nutrition out of the orchid roots (e.g. soil saprobic or ectomycorrhizal fungi). We offer an evolutionary framework for these symbiotic associations. SCOPE Our view is based on the 'Waiting Room Hypothesis', an evolutionary scenario stating that mycorrhizal fungi of land flora were recruited from ancestors that initially colonized roots as endophytes. Endophytes biotrophically colonize tissues in a diffuse way, contrasting with mycorrhizae by the absence of morphological differentiation and of contribution to the plant's nutrition. The association with rhizoctonias is probably the ancestral symbiosis that persists in most extant orchids, while during orchid evolution numerous secondary transitions occurred to other fungal taxa. We suggest that both the rhizoctonia partners and the secondarily acquired ones are from fungal taxa that have broad endophytic ability, as exemplified in non-orchid roots. We review evidence that endophytism in non-orchid plants is the current ecology of many rhizoctonias, which suggests that their ancestors may have been endophytic in orchid ancestors. This also applies to the non-rhizoctonia fungi that were secondarily recruited by several orchid lineages as mycorrhizal partners. Indeed, from our review of the published literature, they are often detected, probably as endophytes, in extant rhizoctonia-associated orchids. CONCLUSION The orchid family offers one of the best documented examples of the 'Waiting Room Hypothesis': their mycorrhizal symbioses support the idea that extant mycorrhizal fungi have been recruited among endophytic fungi that colonized orchid ancestors.
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Affiliation(s)
- Marc-André Selosse
- Institut de Systématique, Évolution, Biodiversité (UMR 7205 – CNRS, MNHN, UPMC, EPHE), Muséum national d’Histoire naturelle, Sorbonne Universités, 57 rue Cuvier, 75005 Paris, France
- Department of Plant Taxonomy and Nature Conservation, University of Gdańsk, Wita Stwosza 59, 80-308, Gdańsk, Poland
- Yunnan Key Laboratory of Plant Reproductive Adaptation and Evolutionary Ecology, Yunnan University, Kunming, China
- Laboratory of Ecology and Evolutionary Biology, Yunnan University, Kunming, China
| | - Rémi Petrolli
- Institut de Systématique, Évolution, Biodiversité (UMR 7205 – CNRS, MNHN, UPMC, EPHE), Muséum national d’Histoire naturelle, Sorbonne Universités, 57 rue Cuvier, 75005 Paris, France
| | - María Isabel Mujica
- Institut de Systématique, Évolution, Biodiversité (UMR 7205 – CNRS, MNHN, UPMC, EPHE), Muséum national d’Histoire naturelle, Sorbonne Universités, 57 rue Cuvier, 75005 Paris, France
- Departamento de Ecología, Pontificia Universidad Católica de Chile, Alameda 340, Santiago, Chile, & Instituto de Ecología and Biodiversidad (IEB), Alameda 340, Santiago, Chile
| | - Liam Laurent
- Institut de Systématique, Évolution, Biodiversité (UMR 7205 – CNRS, MNHN, UPMC, EPHE), Muséum national d’Histoire naturelle, Sorbonne Universités, 57 rue Cuvier, 75005 Paris, France
| | - Benoît Perez-Lamarque
- Institut de Systématique, Évolution, Biodiversité (UMR 7205 – CNRS, MNHN, UPMC, EPHE), Muséum national d’Histoire naturelle, Sorbonne Universités, 57 rue Cuvier, 75005 Paris, France
- Institut de Biologie de l’École Normale Supérieure (IBENS), École Normale Supérieure, CNRS, INSERM, Université PSL, 46 rue d’Ulm, 75005 Paris, France
| | - Tomáš Figura
- Institut de Systématique, Évolution, Biodiversité (UMR 7205 – CNRS, MNHN, UPMC, EPHE), Muséum national d’Histoire naturelle, Sorbonne Universités, 57 rue Cuvier, 75005 Paris, France
- Department of Experimental Plant Biology, Faculty of Science, Charles University, Viničná 5, 128 44, Prague, Czech Republic
| | - Amelia Bourceret
- Institut de Systématique, Évolution, Biodiversité (UMR 7205 – CNRS, MNHN, UPMC, EPHE), Muséum national d’Histoire naturelle, Sorbonne Universités, 57 rue Cuvier, 75005 Paris, France
| | - Hans Jacquemyn
- Department of Biology, Plant Conservation and Population Biology, Department of Biology, Katholieke Universiteit Leuven, Leuven, Belgium
| | - Taiqiang Li
- Yunnan Key Laboratory of Plant Reproductive Adaptation and Evolutionary Ecology, Yunnan University, Kunming, China
- Laboratory of Ecology and Evolutionary Biology, Yunnan University, Kunming, China
| | - Jiangyun Gao
- Yunnan Key Laboratory of Plant Reproductive Adaptation and Evolutionary Ecology, Yunnan University, Kunming, China
- Laboratory of Ecology and Evolutionary Biology, Yunnan University, Kunming, China
| | - Julita Minasiewicz
- Department of Plant Taxonomy and Nature Conservation, University of Gdańsk, Wita Stwosza 59, 80-308, Gdańsk, Poland
| | - Florent Martos
- Institut de Systématique, Évolution, Biodiversité (UMR 7205 – CNRS, MNHN, UPMC, EPHE), Muséum national d’Histoire naturelle, Sorbonne Universités, 57 rue Cuvier, 75005 Paris, France
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14
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Li YY, Boeraeve M, Cho YH, Jacquemyn H, Lee YI. Mycorrhizal Switching and the Role of Fungal Abundance in Seed Germination in a Fully Mycoheterotrophic Orchid, Gastrodia confusoides. Front Plant Sci 2022; 12:775290. [PMID: 35095954 PMCID: PMC8792533 DOI: 10.3389/fpls.2021.775290] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/13/2021] [Accepted: 12/17/2021] [Indexed: 06/14/2023]
Abstract
Mycorrhizal associations are essential for orchid germination and seedling establishment, and thus may constrain the distribution and abundance of orchids under natural conditions. Previous studies have shown that germination and seedling establishment in several orchids often decline with increasing distance from adult plants, resulting in non-random spatial patterns of seedling establishment. In contrast, individuals of the fully mycoheterotrophic orchid Gastrodia confusoides often tend to have random aboveground spatial patterns of distribution within bamboo forests. Since G. confusoides is parasitic on litter-decaying fungi, its random spatial patterns of distribution may be due to highly scattered patterns of litter-decaying fungi within bamboo forests. To test this hypothesis, we first identified the main mycorrhizal fungi associating with developing seeds and adult plants at a bamboo forest site in Taiwan using Miseq high-throughput DNA sequencing. Next, we combined seed germination experiments with quantitative PCR (qPCR) analyses to investigate to what extent the abundance of mycorrhizal fungi affected spatial patterns of seed germination. Our results show that seed germination and subsequent growth to an adult stage in G. confusoides required a distinct switch in mycorrhizal partners, in which protocorms associated with a single Mycena OTU, while adults mainly associated with an OTU from the genus Gymnopus. A strong, positive relationship was observed between germination and Mycena abundance in the litter, but not between germination and Gymnopus abundance. Fungal abundance was not significantly related to the distance from the adult plants, and consequently germination was also not significantly related to the distance from adult plants. Our results provide the first evidence that the abundance of litter-decaying fungi varies randomly within the bamboo forest and independently from G. confusoides adults.
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Affiliation(s)
- Yuan-Yuan Li
- Beijing Key Laboratory of Seed Disease Testing and Control, College of Plant Protection, China Agricultural University, Beijing, China
| | - Margaux Boeraeve
- Department of Biology, Plant Conservation and Population Biology, KU Leuven, Leuven, Belgium
| | - Yu-Hsiu Cho
- Biology Department, National Museum of Natural Science, Taichung, Taiwan
| | - Hans Jacquemyn
- Department of Biology, Plant Conservation and Population Biology, KU Leuven, Leuven, Belgium
| | - Yung-I Lee
- Department of Life Science, National Taiwan University, Taipei, Taiwan
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15
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Miller SL, Gans MR. Largely invariant communities of bacterial endophytes in the nonphotosynthetic mycoheterotrophic plant Pterospora andromedea. Am J Bot 2021; 108:2208-2219. [PMID: 34606096 DOI: 10.1002/ajb2.1754] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/10/2020] [Revised: 07/21/2021] [Accepted: 07/29/2021] [Indexed: 06/13/2023]
Abstract
PREMISE Mycoheterotrophic plants rely on fungi to obtain their carbon requirements. Recent experiments demonstrated the presence of endophytic bacteria associated with mycoheterotrophs. Although mycoheterotrophs show high specificity for their fungal partners, it is not known whether they also show high specificity for associated bacteria or whether the bacteria have a definite function in the symbiosis. METHODS Two 16S rRNA sequencing experiments were designed to explore endophytic microbial community composition and function in root ball fractions of the mycoheterotroph Pterospora andromedea (Ericaceae), and rhizosphere soil and control soil 5 m away from each plant. One experiment compared microbial assemblages in fractions of six plants to those in rhizosphere and control soil samples. Another experiment documented bacterial endophyte diversity in root balls of 97 plants from across North America. RESULTS Soil samples were similar in bacterial community structure but were significantly more diverse and less consistently structured than were bacterial communities within root balls. The proportion of endophytic bacterial species varied slightly but not their community composition despite differences in P. andromedea lineage, geography, conifer species, and fungi. Predictive metagenomic profiling of the endophytes in P. andromedea-only root ball fractions showed many of the bacterial endophytes likely function in N-metabolism and N-fixation. CONCLUSIONS Our results document a consistent and largely invariant community of endophytic bacteria in P. andromedea across biotic and abiotic environmental conditions at a continental scale. It is unknown what role these bacteria may play in the quad-partite symbiotic network centered on P. andromedea; however, the predictive metagenomic profiling suggests a possible function in N-metabolism or N-fixation. Discovery of a ubiquitous community of endophytic bacteria with a putative function centered on N-metabolism or N-fixation could have a previously unrecognized impact on understanding of mycoheterotroph ecophysiology.
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Affiliation(s)
- Steven L Miller
- Department of Botany, University of Wyoming, 1000 University Avenue, Laramie, WY, 82071, USA
| | - Maya R Gans
- Department of Botany, University of Wyoming, 1000 University Avenue, Laramie, WY, 82071, USA
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16
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Wang D, Jacquemyn H, Gomes SIF, Vos RA, Merckx VSFT. Symbiont switching and trophic mode shifts in Orchidaceae. New Phytol 2021; 231:791-800. [PMID: 33932029 PMCID: PMC8252101 DOI: 10.1111/nph.17414] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/09/2021] [Accepted: 04/09/2021] [Indexed: 05/15/2023]
Abstract
Mycorrhizal fungi are central to the biology of land plants. However, to what extent mycorrhizal shifts - broad evolutionary transitions in root-associated fungal symbionts - are related to changes in plant trophic modes remains poorly understood. We built a comprehensive DNA dataset of Orchidaceae fungal symbionts and a dated plant molecular phylogeny to test the hypothesis that shifts in orchid trophic modes follow a stepwise pattern, from autotrophy over partial mycoheterotrophy (mixotrophy) to full mycoheterotrophy, and that these shifts are accompanied by switches in fungal symbionts. We estimate that at least 17 independent shifts from autotrophy towards full mycoheterotrophy occurred in orchids, mostly through an intermediate state of partial mycoheterotrophy. A wide range of fungal partners was inferred to occur in the roots of the common ancestor of this family, including 'rhizoctonias', ectomycorrhizal, and wood- or litter-decaying saprotrophic fungi. Phylogenetic hypothesis tests further show that associations with ectomycorrhizal or saprotrophic fungi were most likely a prerequisite for evolutionary shifts towards full mycoheterotrophy. We show that shifts in trophic mode often coincided with switches in fungal symbionts, suggesting that the loss of photosynthesis selects for different fungal communities in orchids. We conclude that changes in symbiotic associations and ecophysiological traits are tightly correlated throughout the diversification of orchids.
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Affiliation(s)
- Deyi Wang
- Naturalis Biodiversity CenterLeiden2332 AAthe Netherlands
- Institute of BiologyLeiden UniversityLeiden2333 BEthe Netherlands
| | - Hans Jacquemyn
- Department of Biology, Plant Conservation and Population BiologyKU LeuvenKasteelpark Arenberg 31, HeverleeLeuven3001Belgium
| | - Sofia I. F. Gomes
- Naturalis Biodiversity CenterLeiden2332 AAthe Netherlands
- Institute of BiologyLeiden UniversityLeiden2333 BEthe Netherlands
| | - Rutger A. Vos
- Naturalis Biodiversity CenterLeiden2332 AAthe Netherlands
- Institute of BiologyLeiden UniversityLeiden2333 BEthe Netherlands
| | - Vincent S. F. T. Merckx
- Naturalis Biodiversity CenterLeiden2332 AAthe Netherlands
- Department of Evolutionary and Population BiologyInstitute for Biodiversity and Ecosystem DynamicsUniversity of AmsterdamAmsterdam1098 XHthe Netherlands
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17
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Siti-Munirah MY, Dome N, Thorogood CJ. Thismia sitimeriamiae (Thismiaceae), an extraordinary new species from Terengganu, Peninsular Malaysia. PhytoKeys 2021; 179:75-89. [PMID: 34248369 PMCID: PMC8260551 DOI: 10.3897/phytokeys.179.68300] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/05/2021] [Accepted: 06/10/2021] [Indexed: 06/01/2023]
Abstract
We describe an extraordinary new species in the genus Thismia from the Terengganu State of Malaysia in the Malay Peninsula. The new species, which we name Thismia sitimeriamiae, is distinct from all other Thismia species known to science, most notably in its unique mitre configuration formed by the inner tepals and its floral surface morphology characterised by conspicuous orange trichomes. We discuss our findings in the context of underestimated species diversity in the genus Thismia and implications for their conservation. We recommend assigning T. sitimeriamiae the conservation status as Critically Endangered (CR) according to IUCN criteria.
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Affiliation(s)
| | - Nikong Dome
- DigitalDome Photography, 21500 Permaisuri, Terengganu, Malaysia
| | - Chris J. Thorogood
- Department of Plant Sciences, University of Oxford, South Parks Road, Oxford, UK
- University of Oxford Botanic Garden, Rose Lane, Oxford, UK
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18
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Giesemann P, Rasmussen HN, Gebauer G. Partial mycoheterotrophy is common among chlorophyllous plants with Paris-type arbuscular mycorrhiza. Ann Bot 2021; 127:645-653. [PMID: 33547798 PMCID: PMC8052919 DOI: 10.1093/aob/mcab003] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/21/2020] [Accepted: 01/08/2021] [Indexed: 05/07/2023]
Abstract
BACKGROUND AND AIMS An arbuscular mycorrhiza is a mutualistic symbiosis with plants as carbon providers for fungi. However, achlorophyllous arbuscular mycorrhizal species are known to obtain carbon from fungi, i.e. they are mycoheterotrophic. These species all have the Paris type of arbuscular mycorrhiza. Recently, two chlorophyllous Paris-type species proved to be partially mycoheterotrophic. In this study, we explore the frequency of this condition and its association with Paris-type arbuscular mycorrhiza. METHODS We searched for evidence of mycoheterotrophy in all currently published 13C, 2H and 15N stable isotope abundance patterns suited for calculations of enrichment factors, i.e. isotopic differences between neighbouring Paris- and Arum-type species. We found suitable data for 135 plant species classified into the two arbuscular mycorrhizal morphotypes. KEY RESULTS About half of the chlorophyllous Paris-type species tested were significantly enriched in 13C and often also enriched in 2H and 15N, compared with co-occurring Arum-type species. Based on a two-source linear mixing model, the carbon gain from the fungal source ranged between 7 and 93 % with ferns > horsetails > seed plants. The seed plants represented 13 families, many without a previous record of mycoheterotrophy. The 13C-enriched chlorophyllous Paris-type species were exclusively herbaceous perennials, with a majority of them thriving on shady forest ground. CONCLUSIONS Significant carbon acquisition from fungi appears quite common and widespread among Paris-type species, this arbuscular mycorrhizal morphotype probably being a pre-condition for developing varying degrees of mycoheterotrophy.
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Affiliation(s)
- Philipp Giesemann
- University of Bayreuth, Laboratory of Isotope Biogeochemistry, Bayreuth Center of Ecology and Environmental Research (BayCEER), Bayreuth, Germany
| | - Hanne N Rasmussen
- University of Copenhagen, Institute of Geosciences and Natural Resources, Rolighedsvej, Frederiksberg C, Denmark
| | - Gerhard Gebauer
- University of Bayreuth, Laboratory of Isotope Biogeochemistry, Bayreuth Center of Ecology and Environmental Research (BayCEER), Bayreuth, Germany
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Yudina SV, Schelkunov MI, Nauheimer L, Crayn D, Chantanaorrapint S, Hroneš M, Sochor M, Dančák M, Mar SS, Luu HT, Nuraliev MS, Logacheva MD. Comparative Analysis of Plastid Genomes in the Non-photosynthetic Genus Thismia Reveals Ongoing Gene Set Reduction. Front Plant Sci 2021; 12:602598. [PMID: 33796122 PMCID: PMC8009136 DOI: 10.3389/fpls.2021.602598] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/03/2020] [Accepted: 01/22/2021] [Indexed: 05/14/2023]
Abstract
Heterotrophic plants provide intriguing examples of reductive evolution. This is especially evident in the reduction of their plastid genomes, which can potentially proceed toward complete genome loss. Several milestones at the beginning of this path of degradation have been described; however, little is known about the latest stages of plastome reduction. Here we analyze a diversity of plastid genomes in a set of closely related non-photosynthetic plants. We demonstrate how a gradual loss of genes shapes the miniaturized plastomes of these plants. The subject of our study, the genus Thismia, represents the mycoheterotrophic monocot family Thismiaceae, a group that may have experienced a very ancient (60-80 mya) transition to heterotrophy. In all 18 species examined, the plastome is reduced to 14-18 kb and is highly AT-biased. The most complete observed gene set includes accD, seven ribosomal protein genes, three rRNA, and two tRNA genes. Different clades of Thismia have undergone further gene loss (complete absence or pseudogenization) compared to this set: in particular, we report two independent losses of rps2 and rps18.
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Affiliation(s)
- Sophia V. Yudina
- Faculty of Biology, Lomonosov Moscow State University, Moscow, Russia
- Institute for Information Transmission Problems, Moscow, Russia
- Joint Russian-Vietnamese Tropical Scientific and Technological Center, Hanoi, Vietnam
| | - Mikhail I. Schelkunov
- Institute for Information Transmission Problems, Moscow, Russia
- Skolkovo Institute of Science and Technology, Moscow, Russia
| | - Lars Nauheimer
- Australian Tropical Herbarium, James Cook University, Cairns, QLD, Australia
| | - Darren Crayn
- Australian Tropical Herbarium, James Cook University, Cairns, QLD, Australia
| | - Sahut Chantanaorrapint
- Division of Biological Science, Faculty of Science, Prince of Songkla University, Hat Yai, Thailand
| | - Michal Hroneš
- Faculty of Science, Palacký University Olomouc, Olomouc, Czechia
| | - Michal Sochor
- Centre of the Region Haná for Biotechnological and Agricultural Research, Crop Research Institute, Olomouc, Czechia
| | - Martin Dančák
- Faculty of Science, Palacký University Olomouc, Olomouc, Czechia
| | | | - Hong Truong Luu
- Southern Institute of Ecology, Graduate University of Science and Technology, Vietnam Academy of Science and Technology, Ho Chi Minh City, Vietnam
| | - Maxim S. Nuraliev
- Faculty of Biology, Lomonosov Moscow State University, Moscow, Russia
- Joint Russian-Vietnamese Tropical Scientific and Technological Center, Hanoi, Vietnam
| | - Maria D. Logacheva
- Institute for Information Transmission Problems, Moscow, Russia
- Skolkovo Institute of Science and Technology, Moscow, Russia
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Suetsugu K, Matsubayashi J. Evidence for mycorrhizal cheating in Apostasia nipponica, an early-diverging member of the Orchidaceae. New Phytol 2021; 229:2302-2310. [PMID: 33118174 DOI: 10.1111/nph.17049] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/11/2020] [Accepted: 09/23/2020] [Indexed: 05/12/2023]
Abstract
Most land plants, from liverworts to angiosperms, form mutualistic mycorrhizal symbioses with fungal partners. However, several plants known as mycoheterotrophs exploit fungal partners by reversing the polarity of carbon movement, which usually moves from plant to fungus. We investigated the physiological ecology of a photosynthetic orchid, Apostasia nipponica, which belongs to the first branching group within the Orchidaceae, to improve our understanding of mycoheterotrophic evolution in orchids. The fungal symbionts and nutrition modes of A. nipponica were investigated using molecular barcoding and carbon-13 (13 C) and nitrogen-15 (15 N) measurements, respectively. Community profiling based on a metabarcoding technique revealed that A. nipponica associates with specific Ceratobasidium spp. within ectomycorrhizas-forming clades, whereas isotope analysis revealed that A. nipponica was similar to fully mycoheterotrophic orchids in its 13 C signature and was even more enriched in 15 N than most of the fully mycoheterotrophic orchids that exploit ectomycorrhizal fungi. Our molecular and mass-spectrometric approaches demonstrated, for the first time, that a member of the Apostasioideae, the earliest-diverging lineage of the Orchidaceae, gains carbon through both photosynthesis and fungal cheating (i.e. partial mycoheterotrophy) during the adult stage.
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Affiliation(s)
- Kenji Suetsugu
- Department of Biology, Graduate School of Science, Kobe University, Kobe, Hyogo, 657-8501, Japan
| | - Jun Matsubayashi
- Department of Integrated Science and Engineering for Sustainable Societies, Faculty of Science and Engineering, Chuo University, Bunkyo-ku, Tokyo, 112-8551, Japan
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21
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Ho LH, Lee YI, Hsieh SY, Lin IS, Wu YC, Ko HY, Klemens PA, Neuhaus HE, Chen YM, Huang TP, Yeh CH, Guo WJ. GeSUT4 mediates sucrose import at the symbiotic interface for carbon allocation of heterotrophic Gastrodia elata (Orchidaceae). Plant Cell Environ 2021; 44:20-33. [PMID: 32583877 DOI: 10.1111/pce.13833] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/19/2020] [Revised: 06/17/2020] [Accepted: 06/19/2020] [Indexed: 06/11/2023]
Abstract
Gastrodia elata, a fully mycoheterotrophic orchid without photosynthetic ability, only grows symbiotically with the fungus Armillaria. The mechanism of carbon distribution in this mycoheterotrophy is unknown. We detected high sucrose concentrations in all stages of Gastrodia tubers, suggesting sucrose may be the major sugar transported between fungus and orchid. Thick symplasm-isolated wall interfaces in colonized and adjacent large cells implied involvement of sucrose importers. Two sucrose transporter (SUT)-like genes, GeSUT4 and GeSUT3, were identified that were highly expressed in young Armillaria-colonized tubers. Yeast complementation and isotope tracer experiments confirmed that GeSUT4 functioned as a high-affinity sucrose-specific proton-dependent importer. Plasma-membrane/tonoplast localization of GeSUT4-GFP fusions and high RNA expression of GeSUT4 in symbiotic and large cells indicated that GeSUT4 likely functions in active sucrose transport for intercellular allocation and intracellular homeostasis. Transgenic Arabidopsis overexpressing GeSUT4 had larger leaves but were sensitive to excess sucrose and roots were colonized with fewer mutualistic Bacillus, supporting the role of GeSUT4 in regulating sugar allocation. This is not only the first documented carbon import system in a mycoheterotrophic interaction but also highlights the evolutionary importance of sucrose transporters for regulation of carbon flow in all types of plant-microbe interactions.
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Affiliation(s)
- Li-Hsuan Ho
- Department of Biotechnology and Bioindustry Sciences, National Cheng Kung University, Tainan, Taiwan, Republic of China
| | - Yung-I Lee
- Biology Department, National Museum of Natural Science, Taichung, Taiwan, Republic of China
| | - Shu-Ying Hsieh
- Department of Biotechnology and Bioindustry Sciences, National Cheng Kung University, Tainan, Taiwan, Republic of China
| | - I-Shiuan Lin
- Department of Biotechnology and Bioindustry Sciences, National Cheng Kung University, Tainan, Taiwan, Republic of China
| | - Yun-Chien Wu
- Department of Biotechnology and Bioindustry Sciences, National Cheng Kung University, Tainan, Taiwan, Republic of China
| | - Han-Yu Ko
- Department of Biotechnology and Bioindustry Sciences, National Cheng Kung University, Tainan, Taiwan, Republic of China
| | - Patrick A Klemens
- Plant Physiology, University of Kaiserslautern, Kaiserslautern, Germany
| | | | - Yi-Min Chen
- Department of Biotechnology and Bioindustry Sciences, National Cheng Kung University, Tainan, Taiwan, Republic of China
| | - Tzu-Pi Huang
- Department of Plant Pathology, National Chung Hsing University, Taichung, Taiwan, Republic of China
| | - Chih-Hsin Yeh
- Taoyuan District Agricultural Research and Extension Station, Council of Agriculture, Taoyuan, Taiwan, Republic of China
| | - Woei-Jiun Guo
- Department of Biotechnology and Bioindustry Sciences, National Cheng Kung University, Tainan, Taiwan, Republic of China
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22
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Jąkalski M, Minasiewicz J, Caius J, May M, Selosse MA, Delannoy E. The Genomic Impact of Mycoheterotrophy in Orchids. Front Plant Sci 2021; 12:632033. [PMID: 34177974 PMCID: PMC8220222 DOI: 10.3389/fpls.2021.632033] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/21/2020] [Accepted: 05/14/2021] [Indexed: 05/06/2023]
Abstract
Mycoheterotrophic plants have lost the ability to photosynthesize and obtain essential mineral and organic nutrients from associated soil fungi. Despite involving radical changes in life history traits and ecological requirements, the transition from autotrophy to mycoheterotrophy has occurred independently in many major lineages of land plants, most frequently in Orchidaceae. Yet the molecular mechanisms underlying this shift are still poorly understood. A comparison of the transcriptomes of Epipogium aphyllum and Neottia nidus-avis, two completely mycoheterotrophic orchids, to other autotrophic and mycoheterotrophic orchids showed the unexpected retention of several genes associated with photosynthetic activities. In addition to these selected retentions, the analysis of their expression profiles showed that many orthologs had inverted underground/aboveground expression ratios compared to autotrophic species. Fatty acid and amino acid biosynthesis as well as primary cell wall metabolism were among the pathways most impacted by this expression reprogramming. Our study suggests that the shift in nutritional mode from autotrophy to mycoheterotrophy remodeled the architecture of the plant metabolism but was associated primarily with function losses rather than metabolic innovations.
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Affiliation(s)
- Marcin Jąkalski
- Department of Plant Taxonomy and Nature Conservation, Faculty of Biology, University of Gdańsk, Gdańsk, Poland
| | - Julita Minasiewicz
- Department of Plant Taxonomy and Nature Conservation, Faculty of Biology, University of Gdańsk, Gdańsk, Poland
| | - José Caius
- Institute of Plant Sciences Paris-Saclay, Université Paris-Saclay, CNRS, INRAE, Univ Evry, Orsay, France
- Université de Paris, CNRS, INRAE, Institute of Plant Sciences Paris-Saclay, Orsay, France
| | - Michał May
- Department of Plant Taxonomy and Nature Conservation, Faculty of Biology, University of Gdańsk, Gdańsk, Poland
| | - Marc-André Selosse
- Department of Plant Taxonomy and Nature Conservation, Faculty of Biology, University of Gdańsk, Gdańsk, Poland
- Sorbonne Université, CNRS, EPHE, Muséum National d’Histoire Naturelle, Institut de Systématique, Evolution, Biodiversité, Paris, France
| | - Etienne Delannoy
- Institute of Plant Sciences Paris-Saclay, Université Paris-Saclay, CNRS, INRAE, Univ Evry, Orsay, France
- Université de Paris, CNRS, INRAE, Institute of Plant Sciences Paris-Saclay, Orsay, France
- *Correspondence: Etienne Delannoy,
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23
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Herrera H, Sanhueza T, Martiarena R, Valadares R, Fuentes A, Arriagada C. Mycorrhizal Fungi Isolated from Native Terrestrial Orchids from Region of La Araucanía, Southern Chile. Microorganisms 2020; 8:microorganisms8081120. [PMID: 32722489 PMCID: PMC7465119 DOI: 10.3390/microorganisms8081120] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2020] [Revised: 07/06/2020] [Accepted: 07/07/2020] [Indexed: 12/05/2022] Open
Abstract
Mycorrhizal interactions of orchids are influenced by several environmental conditions. Hence, knowledge of mycorrhizal fungi associated with orchids inhabiting different ecosystems is essential to designing recovery strategies for threatened species. This study analyzes the mycorrhizal associations of terrestrial orchids colonizing grassland and understory in native ecosystems of the region of La Araucanía in southern Chile. Mycorrhizal fungi were isolated from peloton-containing roots and identified based on the sequence of the ITS region. Their capacities for seed germination were also investigated. We detected Tulasnella spp. and Ceratobasidium spp. in the pelotons of the analyzed orchids. Additionally, we showed that some Ceratobasidium isolates effectively induce seed germination to differing degrees, unlike Tulasnella spp., which, in most cases, fail to achieve protocorm growth. This process may underline a critical step in the life cycle of Tulasnella-associated orchids, whereas the Ceratobasidium-associated orchids were less specific for fungi and were effectively germinated with mycorrhizal fungi isolated from adult roots.
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Affiliation(s)
- Hector Herrera
- Laboratorio de Biorremediación, Departamento de Ciencias Forestales, Facultad de Ciencias Agropecuarias y Forestales, Universidad de La Frontera, 4811230 Temuco, Chile; (H.H.); (T.S.); (A.F.)
| | - Tedy Sanhueza
- Laboratorio de Biorremediación, Departamento de Ciencias Forestales, Facultad de Ciencias Agropecuarias y Forestales, Universidad de La Frontera, 4811230 Temuco, Chile; (H.H.); (T.S.); (A.F.)
| | - Rodolfo Martiarena
- Estación Experimental Agropecuaria Montecarlo, Instituto Nacional de Tecnología Agropecuaria, Av. el Libertador 2472, Montecarlo N3384, Misiones, Argentina;
| | - Rafael Valadares
- Instituto Tecnologico Vale, Rua Boaventura da Silva 955, Cep, 66050-090 Belém, PA, Brazil;
| | - Alejandra Fuentes
- Laboratorio de Biorremediación, Departamento de Ciencias Forestales, Facultad de Ciencias Agropecuarias y Forestales, Universidad de La Frontera, 4811230 Temuco, Chile; (H.H.); (T.S.); (A.F.)
| | - Cesar Arriagada
- Laboratorio de Biorremediación, Departamento de Ciencias Forestales, Facultad de Ciencias Agropecuarias y Forestales, Universidad de La Frontera, 4811230 Temuco, Chile; (H.H.); (T.S.); (A.F.)
- Correspondence: ; Tel.: +56-045-232-5635; Fax: +56-045-234-1467
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24
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Perez-Lamarque B, Selosse MA, Öpik M, Morlon H, Martos F. Cheating in arbuscular mycorrhizal mutualism: a network and phylogenetic analysis of mycoheterotrophy. New Phytol 2020; 226:1822-1835. [PMID: 32022272 DOI: 10.1111/nph.16474] [Citation(s) in RCA: 20] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/02/2019] [Accepted: 01/20/2020] [Indexed: 05/27/2023]
Abstract
Although mutualistic interactions are widespread and essential in ecosystem functioning, the emergence of uncooperative cheaters threatens their stability, unless there are some physiological or ecological mechanisms limiting interactions with cheaters. In this framework, we investigated the patterns of specialization and phylogenetic distribution of mycoheterotrophic cheaters vs noncheating autotrophic plants and their respective fungi, in a global arbuscular mycorrhizal network with> 25 000 interactions. We show that mycoheterotrophy evolved repeatedly among vascular plants, suggesting low phylogenetic constraints for plants. However, mycoheterotrophic plants are significantly more specialized than autotrophic plants, and they tend to be associated with specialized and closely related fungi. These results raise new hypotheses about the mechanisms (e.g. sanctions, or habitat filtering) that actually limit the interaction of mycoheterotrophic plants and their associated fungi with the rest of the autotrophic plants. Beyond mycorrhizal symbiosis, this unprecedented comparison of mycoheterotrophic vs autotrophic plants provides a network and phylogenetic framework to assess the presence of constraints upon cheating emergences in mutualisms.
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Affiliation(s)
- Benoît Perez-Lamarque
- Institut de Systématique, Évolution, Biodiversité (ISYEB), Muséum national d'histoire naturelle, CNRS, Sorbonne Université, EPHE, Université des Antilles, CP39, 57 rue Cuvier, 75 005, Paris, France
- Institut de Biologie de l'École Normale Supérieure (IBENS), École Normale Supérieure, CNRS, INSERM, Université PSL, 46 rue d'Ulm, 75 005, Paris, France
| | - Marc-André Selosse
- Institut de Systématique, Évolution, Biodiversité (ISYEB), Muséum national d'histoire naturelle, CNRS, Sorbonne Université, EPHE, Université des Antilles, CP39, 57 rue Cuvier, 75 005, Paris, France
- Department of Plant Taxonomy and Nature Conservation, University of Gdansk, Wita Stwosza 59, 80-308, Gdansk, Poland
| | - Maarja Öpik
- University of Tartu, 40 Lai Street, 51 005, Tartu, Estonia
| | - Hélène Morlon
- Institut de Biologie de l'École Normale Supérieure (IBENS), École Normale Supérieure, CNRS, INSERM, Université PSL, 46 rue d'Ulm, 75 005, Paris, France
| | - Florent Martos
- Institut de Systématique, Évolution, Biodiversité (ISYEB), Muséum national d'histoire naturelle, CNRS, Sorbonne Université, EPHE, Université des Antilles, CP39, 57 rue Cuvier, 75 005, Paris, France
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25
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Li ZH, Jiang Y, Ma X, Li JW, Yang JB, Wu JY, Jin XH. Plastid Genome Evolution in the Subtribe Calypsoinae (Epidendroideae, Orchidaceae). Genome Biol Evol 2020; 12:867-870. [PMID: 32386305 PMCID: PMC7313661 DOI: 10.1093/gbe/evaa091] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 05/02/2020] [Indexed: 01/03/2023] Open
Abstract
Calypsoinae is a small subtribe in Orchidaceae (Epidendroideae) characterized by diverse trophic strategies and morphological characters. Calypsoinae includes 13 genera, four of which are leafless and mycoheterotrophic. Mycoheterotrophic species in the leafless genus Corallorhiza are well suited to studies of plastome evolution. However, the lack of plastome sequences for other genera in Calypsoinae limits the scope of comparative and phylogenetic analyses, in particular our understanding of plastome evolution. To understand plastid genome evolution in Calypsoinae, we newly sequenced the plastomes of 12 species in the subtribe, including representatives of three mycoheterotrophic genera as well as five autotrophic genera. We detected two parallel photosynthetic losses in Corallorhiza. Evolutionary analyses indicated that the transition to obligate mycoheterotrophy leads to the relaxation of selection in a highly gene-specific pattern.
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Affiliation(s)
- Zhang-Hai Li
- State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, Beijing, China.,University of Chinese Academy of Sciences, Beijing, China
| | - Yan Jiang
- State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, Beijing, China.,University of Chinese Academy of Sciences, Beijing, China
| | - Xiao Ma
- State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, Beijing, China
| | - Jian-Wu Li
- Xishuangbanna Tropical Botanical Garden, Chinese Academy of Sciences, Yunnan, China
| | - Jun-Bo Yang
- Germplasm Bank of Wild Species in Southwest China, Yunnan, China
| | - Jian-Yong Wu
- Ministry of Ecology and Environment (MEE), Nanjing Institute of Environmental Sciences, Jiangsu, China
| | - Xiao-Hua Jin
- State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, Beijing, China
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26
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Giesemann P, Rasmussen HN, Liebel HT, Gebauer G. Discreet heterotrophs: green plants that receive fungal carbon through Paris-type arbuscular mycorrhiza. New Phytol 2020; 226:960-966. [PMID: 31837155 DOI: 10.1111/nph.16367] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/29/2019] [Accepted: 12/08/2019] [Indexed: 06/10/2023]
Affiliation(s)
- Philipp Giesemann
- Laboratory of Isotope Biogeochemistry, Bayreuth Center of Ecology and Environmental Research (BayCEER), University of Bayreuth, 95440, Bayreuth, Germany
| | - Hanne N Rasmussen
- Department of Geosciences and Nature Resource Management, Section of Forest, Nature and Biomass, University of Copenhagen, Rolighedsvej 23, 1958 Frederiksberg C, Copenhagen, Denmark
| | - Heiko T Liebel
- Laboratory of Isotope Biogeochemistry, Bayreuth Center of Ecology and Environmental Research (BayCEER), University of Bayreuth, 95440, Bayreuth, Germany
- Biological Station Murnauer Moos, 82418, Murnau, Germany
| | - Gerhard Gebauer
- Laboratory of Isotope Biogeochemistry, Bayreuth Center of Ecology and Environmental Research (BayCEER), University of Bayreuth, 95440, Bayreuth, Germany
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27
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Sabino Kikuchi IAB, Keßler PJA, Schuiteman A, Murata J, Ohi-Toma T, Yukawa T, Tsukaya H. Molecular phylogenetic study of the tribe Tropidieae (Orchidaceae, Epidendroideae) with taxonomic and evolutionary implications. PhytoKeys 2020; 140:11-22. [PMID: 32132858 PMCID: PMC7044249 DOI: 10.3897/phytokeys.140.46842] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/26/2019] [Accepted: 12/18/2019] [Indexed: 06/10/2023]
Abstract
The orchid tribe Tropidieae comprises three genera, Tropidia, Corymborkis and Kalimantanorchis. There are three fully mycoheterotrophic species within Tropidieae: Tropidia saprophytica, T. connata and Kalimantanorchis nagamasui. A previous phylogenetic study of K. nagamasui, based only on plastid matK data, placed K. nagamasui outside the clade of Tropidia and Corymborkis without support. In this study, we performed phylogenetic analyses using a nuclear ribosomal DNA spacer (ITS1-5.8S-ITS2), a low-copy nuclear coding gene (Xdh) and a mitochondrial intron (nad1b-c intron) to study the phylogenetic relationships within Tropidieae. We included six photosynthetic and all three fully mycoheterotrophic Tropidieae species. The resulting phylogenetic trees placed these fully mycoheterotrophic species inside the Tropidia clade with high support. In our trees, these three species do not form a monophyletic group together, because the photosynthetic T. graminea is nested amongst them. Our results also suggest that the loss of photosynthetic ability occurred at least twice in Tropidia.
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Affiliation(s)
| | - Paul J A Keßler
- Universiteit Leiden, Hortus botanicus Leiden, PO Box 9500, Leiden, 2300 RA, The Netherlands
| | - André Schuiteman
- Science Directorate, Royal Botanic Gardens, Kew, Richmond, Surrey, TW9 3AB, UK
| | - Jin Murata
- Botanical Gardens, Graduate School of Science, The University of Tokyo, 3-7-1 Hakusan, Bunkyo-ku, Tokyo, 112-0001, Japan
| | - Tetsuo Ohi-Toma
- Botanical Gardens, Graduate School of Science, The University of Tokyo, 3-7-1 Hakusan, Bunkyo-ku, Tokyo, 112-0001, Japan
| | - Tomohisa Yukawa
- Tsukuba Botanical Garden, National Science Museum, 4-1-1 Amakubo, Tsukuba, 305-0005, Japan
| | - Hirokazu Tsukaya
- Department of Biological Sciences, Faculty of Science, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo, 113-0033, Japan
- Bio-Next Project, Okazaki Institute for Integrative Bioscience, National Institutes of Natural Sciences, Yamate Build. #3, 5-1, Higashiyama, Myodaiji, Okazaki, Aichi, 444-8787, Japan
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28
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Ogaki K, Suetsugu K, Kishikawa K, Kyogoku D, Shutoh K, Isagi Y, Kaneko S. New microsatellite markers recognize differences in tandem repeats among four related Gastrodia species (Orchidaceae). Genes Genet Syst 2019; 94:225-229. [PMID: 31813889 DOI: 10.1266/ggs.19-00025] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022] Open
Abstract
Gastrodia is the most species-rich genus among mycoheterotrophic plants, and is thus an essential taxon to understand the mechanism of species diversification in mycoheterotrophs. In this study, we developed microsatellite markers with high transferability for four Gastrodia species to examine genetic differentiation and similarity among species, populations and individuals. The 12 microsatellite markers developed from a G. fontinalis library showed high transferability for the ramets that identified G. nipponica, G. kuroshimensis and G. takeshimensis. In addition to the high transferability of these markers, we observed low allele variation within a sampled population of each species and allele differences among the four species. The 12 markers described here will be useful for investigating the genetic differences among and within the Gastrodia species, which evolved by a limitation of gene flow.
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Affiliation(s)
- Kenji Ogaki
- Graduate School of Symbiotic Systems Science and Technology, Fukushima University
| | - Kenji Suetsugu
- Department of Biology, Graduate School of Science, Kobe University
| | - Keiju Kishikawa
- Graduate School of Symbiotic Systems Science and Technology, Fukushima University
| | | | - Kohtaroh Shutoh
- Graduate School of Symbiotic Systems Science and Technology, Fukushima University.,The Hokkaido University Museum, Hokkaido University
| | - Yuji Isagi
- Graduate School of Agriculture, Kyoto University
| | - Shingo Kaneko
- Graduate School of Symbiotic Systems Science and Technology, Fukushima University
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29
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Herrera H, Soto J, de Bashan LE, Sampedro I, Arriagada C. Root-Associated Fungal Communities in Two Populations of the Fully Mycoheterotrophic Plant Arachnitis uniflora Phil. (Corsiaceae) in Southern Chile. Microorganisms 2019; 7:E586. [PMID: 31756978 PMCID: PMC6955791 DOI: 10.3390/microorganisms7120586] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2019] [Revised: 11/03/2019] [Accepted: 11/19/2019] [Indexed: 02/07/2023] Open
Abstract
The microbiological interactions of the roots of non-photosynthetic plants in South America have been scarcely explored. This study analyzes culturable fungal diversity associated with the mycoheterotrophic plant Arachnitis uniflora Phil. (Corsiaceae) in southern Chile, growing in two different understoreys of native (Nothofagus-dominated) and mixed forest (native, Cupressus sempervirens, and Pinus radiata). Rhizospheric and endophytic fungi were isolated, cultured, and purified to identify microorganisms associated with A. uniflora roots. We showed the different fungi associated with the plant, and that these distributions are influenced by the sampling site. We isolated 410 fungal strains (144 endophytic and 266 from the rhizosphere). We identified 13 operative taxonomical units from plants sampled in the mixed forest, while 15 were from the native forest. Rhizospheric microorganisms were mainly related to Penicillium spp., whereas some pathogenic and saprophytic strains were more frequent inside the roots. Our results have also shown that the fungal strains are weak for phosphate solubilization, but other pathways such as organic acid exudation and indole acetic acid production can be considered as major mechanisms to stimulate plant growth. Our results point to new fungal associates of A. uniflora plants reported in Andean ecosystems, identifying new beneficial endophytic fungi associated with roots of this fully mycoheterotrophic plant.
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Affiliation(s)
- Hector Herrera
- Laboratorio de Biorremediación, Departamento de Ciencias Forestales, Facultad de Ciencias Agropecuarias y Forestales, Universidad de La Frontera, 01145 Temuco, Chile; (H.H.); (J.S.)
| | - Javiera Soto
- Laboratorio de Biorremediación, Departamento de Ciencias Forestales, Facultad de Ciencias Agropecuarias y Forestales, Universidad de La Frontera, 01145 Temuco, Chile; (H.H.); (J.S.)
| | - Luz E. de Bashan
- The Bashan Institute of Science, 1730 Post Oak Court, Auburn, AL 36830, USA;
- Department of Entomology and Plant Pathology, 301 Funchess Hall, Auburn University, Auburn, AL 36849, USA
- Environmental Microbiology Group, Northwestern Center for Biological Research (CIBNOR), Calle IPN 195, 23096 La Paz, B.C.S., Mexico
| | - Inmaculada Sampedro
- Departamento de Microbiología, Facultad de Farmacia, Universidad de Granada, 18071 Granada, Spain;
| | - Cesar Arriagada
- Laboratorio de Biorremediación, Departamento de Ciencias Forestales, Facultad de Ciencias Agropecuarias y Forestales, Universidad de La Frontera, 01145 Temuco, Chile; (H.H.); (J.S.)
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30
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Petersen G, Darby H, Lam VKY, Pedersen HÆ, Merckx VSFT, Zervas A, Seberg O, Graham SW. Mycoheterotrophic Epirixanthes (Polygalaceae) has a typical angiosperm mitogenome but unorthodox plastid genomes. Ann Bot 2019; 124:791-807. [PMID: 31346602 PMCID: PMC6868387 DOI: 10.1093/aob/mcz114] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/28/2019] [Accepted: 07/24/2019] [Indexed: 05/10/2023]
Abstract
BACKGROUND AND AIMS Fully mycoheterotrophic plants derive carbon and other nutrients from root-associated fungi and have lost the ability to photosynthesize. While mycoheterotroph plastomes are often degraded compared with green plants, the effect of this unusual symbiosis on mitochondrial genome evolution is unknown. By providing the first complete organelle genome data from Polygalaceae, one of only three eudicot families that developed mycoheterotrophy, we explore how both organellar genomes evolved after loss of photosynthesis. METHODS We sequenced and assembled four complete plastid genomes and a mitochondrial genome from species of Polygalaceae, focusing on non-photosynthetic Epirixanthes. We compared these genomes with those of other mycoheterotroph and parasitic plant lineages, and assessed whether organelle genes in Epirixanthes experienced relaxed or intensified selection compared with autotrophic relatives. KEY RESULTS Plastomes of two species of Epirixanthes have become substantially degraded compared with that of autotrophic Polygala. Although the lack of photosynthesis is presumably homologous in the genus, the surveyed Epirixanthes species have marked differences in terms of plastome size, structural rearrangements, gene content and substitution rates. Remarkably, both apparently replaced a canonical plastid inverted repeat with large directly repeated sequences. The mitogenome of E. elongata incorporated a considerable number of fossilized plastid genes, by intracellular transfer from an ancestor with a less degraded plastome. Both plastid and mitochondrial genes in E. elongata have increased substitution rates, but the plastid genes of E. pallida do not. Despite this, both species have similar selection patterns operating on plastid housekeeping genes. CONCLUSIONS Plastome evolution largely fits with patterns of gene degradation seen in other heterotrophic plants, but includes highly unusual directly duplicated regions. The causes of rate elevation in the sequenced Epirixanthes mitogenome and of rate differences in plastomes of related mycoheterotrophic species are not currently understood.
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Affiliation(s)
- G Petersen
- Department of Ecology, Environment and Plant Sciences, Stockholm University, Stockholm, Sweden
- Natural History Museum of Denmark, University of Copenhagen, Copenhagen, Denmark
- For correspondence. E-mail:
| | - H Darby
- Department of Botany, University of British Columbia, Vancouver, British Columbia, Canada
- UBC Botanical Garden & Centre for Plant Research, University of British Columbia, Vancouver, British Columbia, Canada
| | - V K Y Lam
- Department of Botany, University of British Columbia, Vancouver, British Columbia, Canada
- UBC Botanical Garden & Centre for Plant Research, University of British Columbia, Vancouver, British Columbia, Canada
| | - H Æ Pedersen
- Natural History Museum of Denmark, University of Copenhagen, Copenhagen, Denmark
| | | | - A Zervas
- Natural History Museum of Denmark, University of Copenhagen, Copenhagen, Denmark
- Department of Environmental Science, Aarhus University, Denmark
| | - O Seberg
- Natural History Museum of Denmark, University of Copenhagen, Copenhagen, Denmark
| | - S W Graham
- Department of Botany, University of British Columbia, Vancouver, British Columbia, Canada
- UBC Botanical Garden & Centre for Plant Research, University of British Columbia, Vancouver, British Columbia, Canada
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31
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Qu XJ, Fan SJ, Wicke S, Yi TS. Plastome Reduction in the Only Parasitic Gymnosperm Parasitaxus Is Due to Losses of Photosynthesis but Not Housekeeping Genes and Apparently Involves the Secondary Gain of a Large Inverted Repeat. Genome Biol Evol 2019; 11:2789-2796. [PMID: 31504501 PMCID: PMC6786476 DOI: 10.1093/gbe/evz187] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 08/21/2019] [Indexed: 02/06/2023] Open
Abstract
Plastid genomes (plastomes) of parasitic plants undergo dramatic reductions as the need for photosynthesis relaxes. Here, we report the plastome of the only known heterotrophic gymnosperm Parasitaxus usta (Podocarpaceae). With 68 unique genes, of which 33 encode proteins, 31 tRNAs, and four rRNAs in a plastome of 85.3-kb length, Parasitaxus has both the smallest and the functionally least capable plastid genome of gymnosperms. Although the heterotroph retains chlorophyll, all genes for photosynthesis are physically or functionally lost, making photosynthetic energy gain impossible. The pseudogenization of the three plastome-encoded light-independent chlorophyll biosynthesis genes chlB, chlL, and chlN implies that Parasitaxus relies on either only the light-dependent chlorophyll biosynthesis pathway or another regulation system. Nesting within a group of gymnosperms known for the absence of the large inverted repeat regions (IRs), another unusual feature of the Parasitaxus plastome is the existence of a 9,256-bp long IR. Its short length and a gene composition that completely differs from those of IR-containing gymnosperms together suggest a regain of this critical, plastome structure-stabilizing feature. In sum, our findings highlight the particular path of lifestyle-associated reductive plastome evolution, where structural features might provide additional cues of a continued selection for plastome maintenance.
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Affiliation(s)
- Xiao-Jian Qu
- Key Lab of Plant Stress Research, College of Life Sciences, Shandong Normal University, Ji’nan, Shandong, China
- Germplasm Bank of Wild Species, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan, China
| | - Shou-Jin Fan
- Key Lab of Plant Stress Research, College of Life Sciences, Shandong Normal University, Ji’nan, Shandong, China
| | - Susann Wicke
- Institute for Evolution and Biodiversity, University of Muenster, Germany
| | - Ting-Shuang Yi
- Germplasm Bank of Wild Species, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan, China
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Guo X, Zhao Z, Mar SS, Zhang D, Saunders RMK. A symbiotic balancing act: arbuscular mycorrhizal specificity and specialist fungus gnat pollination in the mycoheterotrophic genus Thismia (Thismiaceae). Ann Bot 2019; 124:331-342. [PMID: 31189014 PMCID: PMC6758588 DOI: 10.1093/aob/mcz087] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/06/2019] [Accepted: 05/17/2019] [Indexed: 05/25/2023]
Abstract
BACKGROUND AND AIMS Mycorrhizal associations in mycoheterotrophic plants are generally more specialized than in autotrophs. Mycoheterotrophs typically bear small, inconspicuous flowers that often self-pollinate to maximize seed set, although some have structurally complex flowers indicative of xenogamy. A trade-off has previously been proposed between specialization in these above- and below-ground symbioses, although empirical data are lacking. METHODS We used next-generation DNA sequencing to compare the mycorrhizal communities from the roots of a mycoheterotrophic species, Thismia tentaculata (Thismiaceae), and its neighbouring autotrophs. We furthermore conducted detailed assessments of floral phenology and pollination ecology, and performed artificial pollination experiments to determine the breeding system. KEY RESULTS Thismia tentaculata maintains a symbiotic association with a single arbuscular mycorrhizal Rhizophagus species. The flowers are pollinated by a single species of fungus gnats (Corynoptera, Sciaridae), which are attracted by the yellow pigments and are temporarily restrained within the perianth chamber before departing via apertures between the anthers. The plants are self-compatible but predominantly xenogamous. CONCLUSIONS Our findings demonstrate that T. tentaculata maintains highly specialized associations with pollinators and mycorrhizal fungi, both of which are widely distributed. We suggest that specialization in multiple symbiotic interactions is possible in mycoheterotrophs if redundant selective pressures are not exerted to further restrict an already constrained suite of life-history traits.
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Affiliation(s)
- Xing Guo
- School of Biological Sciences, The University of Hong Kong, Hong Kong, China
| | - Zhongtao Zhao
- South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, China
| | | | - Dianxiang Zhang
- South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, China
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Suetsugu K, Yamato M, Matsubayashi J, Tayasu I. Comparative study of nutritional mode and mycorrhizal fungi in green and albino variants of Goodyera velutina, an orchid mainly utilizing saprotrophic rhizoctonia. Mol Ecol 2019; 28:4290-4299. [PMID: 31448451 DOI: 10.1111/mec.15213] [Citation(s) in RCA: 22] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/11/2019] [Revised: 07/05/2019] [Accepted: 07/22/2019] [Indexed: 01/30/2023]
Abstract
The majority of chlorophyllous orchids form mycorrhizal associations with so-called rhizoctonia fungi, a phylogenetically heterogeneous assemblage of predominantly saprotrophic fungi in Ceratobasidiaceae, Tulasnellaceae, and Serendipitaceae. It is still a matter of debate whether adult orchids mainly associated with rhizoctonia species are partially mycoheterotrophic. Here, we investigated the nutritional modes of green and albino variants of Goodyera velutina, an orchid species considered to be mainly associated with Ceratobasidium spp., by measuring their 13 C and 15 N abundances, and by molecular barcoding of their mycorrhizal fungi. Molecular analysis revealed that both green and albino variants of G. velutina harbored a similar range of mycobionts, mainly saprotrophic Ceratobasidium spp., Tulasnella spp., and ectomycorrhizal Russula spp. In addition, stable isotope analysis revealed that albino variants were significantly enriched in 13 C but not so greatly in 15 N, suggesting that saprotrophic Ceratobasidium spp. and Tulasnella spp. are their main carbon source. However, in green variants, 13 C levels were depleted and those of 15 N were indistinguishable from the co-occurring autotrophic plants. Therefore, we concluded that the albino G. velutina variants are fully mycoheterotrophic plants whose C derives mainly from saprotrophic rhizoctonia, while the green G. velutina variants are mainly autotrophic plants, at least at our study site, in spite of their additional associations with ectomycorrhizal fungi. This is the first report demonstrating that adult nonphotosynthetic albino variants can obtain their nutrition mainly from nonectomycorrhizal rhizoctonia.
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Affiliation(s)
- Kenji Suetsugu
- Department of Biology, Graduate School of Science, Kobe University, Kobe, Japan
| | | | - Jun Matsubayashi
- Department of Biogeochemistry, Japan Agency for Marine-Earth Science and Technology, Yokosuka, Japan
| | - Ichiro Tayasu
- Research Institute for Humanity and Nature, Kyoto, Japan
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Lallemand F, Logacheva M, Le Clainche I, Bérard A, Zheleznaia E, May M, Jakalski M, Delannoy É, Le Paslier MC, Selosse MA. Thirteen New Plastid Genomes from Mixotrophic and Autotrophic Species Provide Insights into Heterotrophy Evolution in Neottieae Orchids. Genome Biol Evol 2019; 11:2457-2467. [PMID: 31396616 PMCID: PMC6733356 DOI: 10.1093/gbe/evz170] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 08/07/2019] [Indexed: 12/12/2022] Open
Abstract
Mixotrophic species use both organic and mineral carbon sources. Some mixotrophic plants combine photosynthesis and a nutrition called mycoheterotrophy, where carbon is obtained from fungi forming mycorrhizal symbiosis with their roots. These species can lose photosynthetic abilities and evolve full mycoheterotrophy. Besides morphological changes, the latter transition is associated with a deep alteration of the plastid genome. Photosynthesis-related genes are lost first, followed by housekeeping genes, eventually resulting in a highly reduced genome. Whether relaxation of selective constraints already occurs for the plastid genome of mixotrophic species, which remain photosynthetic, is unclear. This is partly due to the difficulty of comparing plastid genomes of autotrophic, mixotrophic, and mycoheterotrophic species in a narrow phylogenetic framework. We address this question in the orchid tribe Neottieae, where this large assortment of nutrition types occurs. We sequenced 13 new plastid genomes, including 9 mixotrophic species and covering all 6 Neottieae genera. We investigated selective pressure on plastid genes in each nutrition type and conducted a phylogenetic inference of the group. Surprisingly, photosynthesis-related genes did not experience selection relaxation in mixotrophic species compared with autotrophic relatives. Conversely, we observed evidence for selection intensification for some plastid genes. Photosynthesis is thus still under purifying selection, maybe because of its role in fruit formation and thus reproductive success. Phylogenetic analysis resolved most relationships, but short branches at the base of the tree suggest an evolutionary radiation at the beginning of Neottieae history, which, we hypothesize, may be linked to mixotrophy emergence.
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Affiliation(s)
- Félix Lallemand
- Institut de Systématique, Evolution, Biodiversité (ISYEB), Muséum national d’Histoire naturelle, CNRS, Sorbonne Université, EPHE, Paris, France
| | - Maria Logacheva
- Laboratory of Plant Genomics, Institute for Information Transmission Problems, Moscow, Russia
- Skolkovo Institute of Science and Technology, Moscow, Russia
| | - Isabelle Le Clainche
- Etude du Polymorphisme des Génomes Végétaux (EPGV), INRA, Université Paris-Saclay, Evry, France
| | - Aurélie Bérard
- Etude du Polymorphisme des Génomes Végétaux (EPGV), INRA, Université Paris-Saclay, Evry, France
| | - Ekaterina Zheleznaia
- Peoples’ Friendship University of Russia, Timiryazev State Biological Museum, Moscow, Russia
| | - Michał May
- Faculty of Biology, Department of Plant Taxonomy and Nature Conservation, University of Gdańsk, Poland
| | - Marcin Jakalski
- Faculty of Biology, Department of Plant Taxonomy and Nature Conservation, University of Gdańsk, Poland
| | - Étienne Delannoy
- Institute of Plant Sciences Paris-Saclay (IPS2), CNRS, INRA, Université Paris-Sud, Orsay, France
- Université Evry, Université Paris-Saclay, Orsay, France
| | | | - Marc-André Selosse
- Institut de Systématique, Evolution, Biodiversité (ISYEB), Muséum national d’Histoire naturelle, CNRS, Sorbonne Université, EPHE, Paris, France
- Faculty of Biology, Department of Plant Taxonomy and Nature Conservation, University of Gdańsk, Poland
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35
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Gomes SIF, van Bodegom PM, Merckx VSFT, Soudzilovskaia N. Environmental drivers for cheaters of arbuscular mycorrhizal symbiosis in tropical rainforests. New Phytol 2019; 223:1575-1583. [PMID: 31038750 PMCID: PMC6771734 DOI: 10.1111/nph.15876] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/18/2019] [Accepted: 04/15/2019] [Indexed: 05/22/2023]
Abstract
Hundreds of nonphotosynthetic mycoheterotrophic plant species cheat the arbuscular mycorrhizal symbiosis. Their patchy local occurrence suggests constraints by biotic and abiotic factors, among which the role of soil chemistry and nutrient status has not been investigated. Here, we examine the edaphic drivers predicting the local-scale distribution of mycoheterotrophic plants in two lowland rainforests in South America. We compared soil chemistry and nutrient status in plots where mycoheterotrophic plants were present with those without these plants. Soil pH, soil nitrate, and the interaction between soil potassium and nitrate concentrations were the best predictors for the occurrence of mycoheterotrophic plants in these tropical rainforests. Mycoheterotrophic plant occurrences decreased with a rise in each of these predictors. This indicates that these plants are associated with low-fertility patches. Such low-fertility conditions coincide with conditions that potentially favour a weak mutualism between plants and arbuscular mycorrhizal fungi according to the trade balance model. Our study points out which soil properties favour the cheating of arbuscular mycorrhizal networks in tropical forests. The patchy occurrence of mycoheterotrophic plants suggests that local soil heterogeneity causes the stability of arbuscular mycorrhizal networks to vary at a very small scale.
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Affiliation(s)
- Sofia I. F. Gomes
- Institute of Environmental SciencesLeiden University2333 CCLeidenthe Netherlands
- Understanding Evolution GroupNaturalis Biodiversity Center2332 AALeidenthe Netherlands
| | - Peter M. van Bodegom
- Institute of Environmental SciencesLeiden University2333 CCLeidenthe Netherlands
| | - Vincent S. F. T. Merckx
- Understanding Evolution GroupNaturalis Biodiversity Center2332 AALeidenthe Netherlands
- Department of Evolutionary and Population BiologyInstitute for Biodiversity and Ecosystem DynamicsUniversity of AmsterdamAmsterdamthe Netherlands
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36
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Yunoh SMM, Nikong D. Thismiadomei and T.terengganuensis (Thismiaceae), two new species, and T.javanica, a new record from Terengganu, Peninsular Malaysia. PhytoKeys 2019; 124:123-137. [PMID: 31274980 PMCID: PMC6599183 DOI: 10.3897/phytokeys.124.34728] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/21/2019] [Accepted: 05/28/2019] [Indexed: 06/01/2023]
Abstract
Two new species of the mycoheterotrophic genus Thismia Griff. (Thismiaceae), Thismiadomei Siti-Munirah and T.terengganuensis Siti-Munirah from Peninsular Malaysia, are described and illustrated. Thismiadomei, characterized by its perianth lobes that are upright and curve inward, but are imperfectly connate, falls within sectionOdoardoa. Thismiaterengganuensis is characterized by its mitre with three appendages on its apex, so falls within sectionGeomitra. Both new species are unique and totally different from other described species, T.domei by the trichomes on its outer perianth tube surface and T.terengganuensis by its mitre with slender appendages. Thismiajavanica J.J.Sm, also from Terengganu, is a new record for Peninsular Malaysia.
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Affiliation(s)
- Siti-Munirah Mat Yunoh
- Forest Research Institute Malaysia, 52109 Kepong, Selangor, MalaysiaForest Research Institute MalaysiaKepongMalaysia
| | - Dome Nikong
- DigitalDome Photography, 21500 Permaisuri, Terengganu, MalaysiaDigitalDome PhotographyTerengganuMalaysia
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37
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Lallemand F, Martin-Magniette ML, Gilard F, Gakière B, Launay-Avon A, Delannoy É, Selosse MA. In situ transcriptomic and metabolomic study of the loss of photosynthesis in the leaves of mixotrophic plants exploiting fungi. Plant J 2019; 98:826-841. [PMID: 30735596 DOI: 10.1111/tpj.14276] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/07/2018] [Revised: 01/31/2019] [Accepted: 02/01/2019] [Indexed: 05/15/2023]
Abstract
Mycoheterotrophic plants have lost photosynthesis and obtain carbon through mycorrhizal fungi colonizing their roots. They are likely to have evolved from mixotrophic ancestors, which rely on both photosynthesis and fungal carbon for their development. Whereas our understanding of the ecological and genomic changes associated with the evolutionary shift to mycoheterotrophy is deepening, little information is known about the specific metabolic and physiological features driving this evolution. We investigated this issue in naturally occurring achlorophyllous variants of temperate mixotrophic orchids. We carried out an integrated transcriptomic and metabolomic analysis of the response to achlorophylly in the leaves of three mixotrophic species sampled in natura. Achlorophyllous leaves showed major impairment of their photosynthetic and mineral nutrition functions, strong accumulation of free amino acids, overexpression of enzymes and transporters related to sugars, amino acids and fatty acid catabolism, as well as induction of some autophagy-related and biotic stress genes. Such changes were reminiscent of these reported for variegated leaves and appeared to be symptomatic of a carbon starvation response. Rather than decisive metabolic innovations, we suggest that the evolution towards mycoheterotrophy in orchids is more likely to be reliant on the versatility of plant metabolism and an ability to exploit fungal organic resources, especially amino acids, to replace missing photosynthates.
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Affiliation(s)
- Félix Lallemand
- Institut de Systématique, Evolution, Biodiversité (ISYEB), Muséum national d'Histoire naturelle, CNRS, Sorbonne Université, EPHE, CP 39, 57 rue Cuvier, 75005, Paris, France
| | - Marie-Laure Martin-Magniette
- Institute of Plant Sciences Paris-Saclay (IPS2), CNRS, INRA, Université Paris-Sud, Université Evry, Université Paris-Saclay, 91405, Orsay, France
- Institute of Plant Sciences Paris-Saclay IPS2, Paris-Diderot, Sorbonne Paris-Cité, 91405, Orsay, France
- UMR MIA-Paris, AgroParisTech, INRA, Université Paris-Saclay, Paris, France
| | - Françoise Gilard
- Institute of Plant Sciences Paris-Saclay (IPS2), CNRS, INRA, Université Paris-Sud, Université Evry, Université Paris-Saclay, 91405, Orsay, France
- Plateforme Métabolisme Métabolome, Institute of Plant Sciences Paris-Saclay (IPS2), CNRS, INRA, Univ. Paris-Sud, Univ. Evry, Univ. Paris-Diderot, Univ. Paris-Saclay, Bâtiment 630 Rue Noetzlin, 91192, Gif-sur-Yvette Cedex, France
| | - Bertrand Gakière
- Institute of Plant Sciences Paris-Saclay (IPS2), CNRS, INRA, Université Paris-Sud, Université Evry, Université Paris-Saclay, 91405, Orsay, France
- Plateforme Métabolisme Métabolome, Institute of Plant Sciences Paris-Saclay (IPS2), CNRS, INRA, Univ. Paris-Sud, Univ. Evry, Univ. Paris-Diderot, Univ. Paris-Saclay, Bâtiment 630 Rue Noetzlin, 91192, Gif-sur-Yvette Cedex, France
| | - Alexandra Launay-Avon
- Institute of Plant Sciences Paris-Saclay (IPS2), CNRS, INRA, Université Paris-Sud, Université Evry, Université Paris-Saclay, 91405, Orsay, France
- Institute of Plant Sciences Paris-Saclay IPS2, Paris-Diderot, Sorbonne Paris-Cité, 91405, Orsay, France
| | - Étienne Delannoy
- Institute of Plant Sciences Paris-Saclay (IPS2), CNRS, INRA, Université Paris-Sud, Université Evry, Université Paris-Saclay, 91405, Orsay, France
- Institute of Plant Sciences Paris-Saclay IPS2, Paris-Diderot, Sorbonne Paris-Cité, 91405, Orsay, France
| | - Marc-André Selosse
- Institut de Systématique, Evolution, Biodiversité (ISYEB), Muséum national d'Histoire naturelle, CNRS, Sorbonne Université, EPHE, CP 39, 57 rue Cuvier, 75005, Paris, France
- Faculty of Biology, University of Gdańsk, ul. Wita Stwosza 59, 80-308, Gdańsk, Poland
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38
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Kishikawa K, Suetsugu K, Kyogoku D, Ogaki K, Iga D, Shutoh K, Isagi Y, Kaneko S. Development of microsatellite markers for the completely cleistogamous species Gastrodia takeshimensis (Orchidaceae) that are transferable to its chasmogamous sister G. nipponica. Genes Genet Syst 2019; 94:95-98. [PMID: 30956254 DOI: 10.1266/ggs.18-00057] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022] Open
Abstract
We developed microsatellite markers to compare the genetic variation between the putatively cleistogamous Gastrodia takeshimensis (Orchidaceae) and its chasmogamous sister species G. nipponica. We expected low genetic variation in G. takeshimensis in view of its hypothesized cleistogamy. Eighteen primer pairs were developed from a G. takeshimensis genomic DNA library, and their characteristics were tested for G. takeshimensis and G. nipponica. Seven loci were polymorphic in G. nipponica, whereas all loci showed no polymorphism in G. takeshimensis. Genetic diversity was thus not detected in G. takeshimensis, and it seems to have been lost by repeated selfing in the completely closed flower. The 18 markers described here will be useful for investigating the genetic variation between a cleistogamous species and its chasmogamous sister species.
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Affiliation(s)
- Keiju Kishikawa
- Graduate School of Symbiotic Systems Science and Technology, Fukushima University
| | - Kenji Suetsugu
- Department of Biology, Graduate School of Science, Kobe University
| | - Daisuke Kyogoku
- Present affiliation: Graduate School of Life Sciences, Tohoku University.,Graduate School of Agriculture, Kyoto University
| | - Kenji Ogaki
- Graduate School of Symbiotic Systems Science and Technology, Fukushima University
| | - Daisuke Iga
- Faculty of Symbiotic Systems Science, Fukushima University
| | - Kohtaroh Shutoh
- Graduate School of Symbiotic Systems Science and Technology, Fukushima University.,Faculty of Education, Niigata University
| | - Yuji Isagi
- Graduate School of Agriculture, Kyoto University
| | - Shingo Kaneko
- Faculty of Symbiotic Systems Science, Fukushima University
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39
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Kim YK, Jo S, Cheon SH, Joo MJ, Hong JR, Kwak MH, Kim KJ. Extensive Losses of Photosynthesis Genes in the Plastome of a Mycoheterotrophic Orchid, Cyrtosia septentrionalis (Vanilloideae: Orchidaceae). Genome Biol Evol 2019; 11:565-571. [PMID: 30715335 PMCID: PMC6390903 DOI: 10.1093/gbe/evz024] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 01/29/2019] [Indexed: 11/26/2022] Open
Abstract
Cyrtosia septentrionalis is an achlorophyllous mycoheterotrophic orchid in the subfamily Vanilloideae (Orchidaceae). This article reports C. septentrionalis's complete plastome sequence and compare it with other orchid plastomes with a same mycoheterotrophic nutritional mode. The C. septentrionalis plastome has decreased to 96,859 bp in length, but it still maintains a quadripartite structure. The C. septentrionalis plastome contains 38 protein-coding genes, 25 tRNA genes, and four ribosomal RNA genes. Most genes related to photosynthesis have been lost, whereas the majority of housekeeping genes remain; this pattern corresponds to the end of stage 3 gene degradation. The inverted repeat regions of the C. septentrionalis plastome have decreased to 10,414 bp and mainly contain the gene ycf2. A block consisting of four rrn genes and rps7 and rps12 has shifted to a small single-copy region. As a result, the small single-copy region was found to be expanded, despite the loss of all ndh genes in the region. Three inversion mutations are required to explain the C. septentrionalis plastome's current gene order. The species is endangered, and these results have implications for its conservation.
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Affiliation(s)
- Young-Kee Kim
- Division of Life Sciences, Korea University, Seoul, Korea
| | - Sangjin Jo
- Division of Life Sciences, Korea University, Seoul, Korea
| | - Se-Hwan Cheon
- Division of Life Sciences, Korea University, Seoul, Korea
| | - Min-Jung Joo
- Division of Life Sciences, Korea University, Seoul, Korea
| | - Ja-Ram Hong
- Division of Life Sciences, Korea University, Seoul, Korea
| | - Myoung Hai Kwak
- Department of Plant Resources, National Institute of Biological Resources, Incheon, Korea
| | - Ki-Joong Kim
- Division of Life Sciences, Korea University, Seoul, Korea
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40
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Givnish TJ, Zuluaga A, Spalink D, Soto Gomez M, Lam VKY, Saarela JM, Sass C, Iles WJD, de Sousa DJL, Leebens-Mack J, Chris Pires J, Zomlefer WB, Gandolfo MA, Davis JI, Stevenson DW, dePamphilis C, Specht CD, Graham SW, Barrett CF, Ané C. Monocot plastid phylogenomics, timeline, net rates of species diversification, the power of multi-gene analyses, and a functional model for the origin of monocots. Am J Bot 2018; 105:1888-1910. [PMID: 30368769 DOI: 10.1002/ajb2.1178] [Citation(s) in RCA: 103] [Impact Index Per Article: 17.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/14/2018] [Accepted: 08/03/2018] [Indexed: 05/03/2023]
Abstract
PREMISE OF THE STUDY We present the first plastome phylogeny encompassing all 77 monocot families, estimate branch support, and infer monocot-wide divergence times and rates of species diversification. METHODS We conducted maximum likelihood analyses of phylogeny and BAMM studies of diversification rates based on 77 plastid genes across 545 monocots and 22 outgroups. We quantified how branch support and ascertainment vary with gene number, branch length, and branch depth. KEY RESULTS Phylogenomic analyses shift the placement of 16 families in relation to earlier studies based on four plastid genes, add seven families, date the divergence between monocots and eudicots+Ceratophyllum at 136 Mya, successfully place all mycoheterotrophic taxa examined, and support recognizing Taccaceae and Thismiaceae as separate families and Arecales and Dasypogonales as separate orders. Only 45% of interfamilial divergences occurred after the Cretaceous. Net species diversification underwent four large-scale accelerations in PACMAD-BOP Poaceae, Asparagales sister to Doryanthaceae, Orchidoideae-Epidendroideae, and Araceae sister to Lemnoideae, each associated with specific ecological/morphological shifts. Branch ascertainment and support across monocots increase with gene number and branch length, and decrease with relative branch depth. Analysis of entire plastomes in Zingiberales quantifies the importance of non-coding regions in identifying and supporting short, deep branches. CONCLUSIONS We provide the first resolved, well-supported monocot phylogeny and timeline spanning all families, and quantify the significant contribution of plastome-scale data to resolving short, deep branches. We outline a new functional model for the evolution of monocots and their diagnostic morphological traits from submersed aquatic ancestors, supported by convergent evolution of many of these traits in aquatic Hydatellaceae (Nymphaeales).
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Affiliation(s)
- Thomas J Givnish
- Department of Botany, University of Wisconsin-Madison, Madison, Wisconsin, 53706, USA
| | | | - Daniel Spalink
- Department of Ecosystem Science, Texas A&M University, College Station, Texas, 77840, USA
| | - Marybel Soto Gomez
- Department of Botany, University of British Columbia, Vancouver, British Columbia, V6T 1Z4, Canada
| | - Vivienne K Y Lam
- Department of Botany, University of British Columbia, Vancouver, British Columbia, V6T 1Z4, Canada
| | | | - Chodon Sass
- The University and Jepson Herbarium, University of California-Berkeley, Berkeley, California, 94720, USA
| | - William J D Iles
- Department of Earth and Environmental Sciences, University of Michigan, Ann Arbor, Michigan, 48109, USA
| | - Danilo José Lima de Sousa
- Departamento de Ciéncias Biológicas, Universidade Estadual de Feira de Santana, Feira de Santana, Bahia, 44036-900, Brazil
| | - James Leebens-Mack
- Department of Plant Biology, University of Georgia, Athens, Georgia, 30602, USA
| | - J Chris Pires
- Division of Biological Sciences, University of Missouri-Columbia, Columbia, Missouri, 65211, USA
| | - Wendy B Zomlefer
- Department of Plant Biology, University of Georgia, Athens, Georgia, 30602, USA
| | - Maria A Gandolfo
- School of Integrative Plant Sciences and L.H. Bailey Hortorium, Cornell University, Ithaca, New York, 14853, USA
| | - Jerrold I Davis
- School of Integrative Plant Sciences and L.H. Bailey Hortorium, Cornell University, Ithaca, New York, 14853, USA
| | | | - Claude dePamphilis
- Department of Biology, Pennsylvania State University, University Park, Pennsylvania, 16802, USA
| | - Chelsea D Specht
- School of Integrative Plant Sciences and L.H. Bailey Hortorium, Cornell University, Ithaca, New York, 14853, USA
| | - Sean W Graham
- Department of Botany, University of British Columbia, Vancouver, British Columbia, V6T 1Z4, Canada
| | - Craig F Barrett
- Department of Biology, West Virginia University, Morgantown, West Virginia, 26506, USA
| | - Cécile Ané
- Department of Botany, University of Wisconsin-Madison, Madison, Wisconsin, 53706, USA
- Department of Statistics, University of Wisconsin-Madison, Madison, Wisconsin, 53706, USA
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41
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Tĕšitel J, Těšitelová T, Minasiewicz J, Selosse MA. Mixotrophy in Land Plants: Why To Stay Green? Trends Plant Sci 2018; 23:656-659. [PMID: 29929775 DOI: 10.1016/j.tplants.2018.05.010] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/24/2018] [Revised: 05/17/2018] [Accepted: 05/23/2018] [Indexed: 05/12/2023]
Abstract
Mixotrophic plants combine photosynthesis and heterotrophic nutrition. Recent research suggests mechanisms explaining why mixotrophy is so common in terrestrial ecosystems. First, mixotrophy overcomes nutrient limitation and/or seedling establishment constraints. Second, although genetic drift may push mixotrophs to full heterotrophy, the role of photosynthesis in reproduction stabilizes mixotrophy.
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Affiliation(s)
- Jakub Tĕšitel
- Masaryk University, Department of Botany and Zoology, Kotlarska 267/2, 611 37 Brno, Czech Republic
| | - Tamara Těšitelová
- University of South Bohemia, Faculty of Science, Branisovska 1760, 370 05 Ceske Budejovice, Czech Republic
| | - Julita Minasiewicz
- Department of Plant Taxonomy and Nature Conservation, University of Gdansk, Wita Stwosza 59, 80-308 Gdansk, Poland
| | - Marc-André Selosse
- Department of Plant Taxonomy and Nature Conservation, University of Gdansk, Wita Stwosza 59, 80-308 Gdansk, Poland; Institut de Systématique, Évolution, Biodiversité (ISYEB - UMR 7205-CNRS, MNHN, UPMC, EPHE), Muséum national d'Histoire naturelle, Sorbonne Universités, 57 rue Cuvier, CP50, 75005 Paris, France.
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Ogura-Tsujita Y, Gebauer G, Xu H, Fukasawa Y, Umata H, Tetsuka K, Kubota M, Schweiger JMI, Yamashita S, Maekawa N, Maki M, Isshiki S, Yukawa T. The giant mycoheterotrophic orchid Erythrorchis altissima is associated mainly with a divergent set of wood-decaying fungi. Mol Ecol 2018; 27:1324-1337. [PMID: 29419910 DOI: 10.1111/mec.14524] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/08/2017] [Revised: 01/14/2018] [Accepted: 01/19/2018] [Indexed: 11/28/2022]
Abstract
The climbing orchid Erythrorchis altissima is the largest mycoheterotroph in the world. Although previous in vitro work suggests that E. altissima has a unique symbiosis with wood-decaying fungi, little is known about how this giant orchid meets its carbon and nutrient demands exclusively via mycorrhizal fungi. In this study, the mycorrhizal fungi of E. altissima were molecularly identified using root samples from 26 individuals. Furthermore, in vitro symbiotic germination with five fungi and stable isotope compositions in five E. altissima at one site were examined. In total, 37 fungal operational taxonomic units (OTUs) belonging to nine orders in Basidiomycota were identified from the orchid roots. Most of the fungal OTUs were wood-decaying fungi, but underground roots had ectomycorrhizal Russula. Two fungal isolates from mycorrhizal roots induced seed germination and subsequent seedling development in vitro. Measurement of carbon and nitrogen stable isotope abundances revealed that E. altissima is a full mycoheterotroph whose carbon originates mainly from wood-decaying fungi. All of the results show that E. altissima is associated with a wide range of wood- and soil-inhabiting fungi, the majority of which are wood-decaying taxa. This generalist association enables E. altissima to access a large carbon pool in woody debris and has been key to the evolution of such a large mycoheterotroph.
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Affiliation(s)
| | - Gerhard Gebauer
- Bayreuth Center of Ecology and Environmental Research (BayCEER), University of Bayreuth, Bayreuth, Germany
| | - Hui Xu
- Botanical Gardens, Tohoku University, Aoba-ku, Sendai, Japan
| | - Yu Fukasawa
- Graduate School of Agricultural Science, Tohoku University, Osaki, Miyagi, Japan
| | - Hidetaka Umata
- Faculty of Agriculture, Kagoshima University, Korimoto, Kagoshima, Japan
| | - Kenshi Tetsuka
- Yakushima Yakutane-goyo Reseaech Group, Yakushima-machi, Kagoshima, Japan
| | - Miho Kubota
- Faculty of Agriculture, Saga University, Saga, Japan
| | - Julienne M-I Schweiger
- Bayreuth Center of Ecology and Environmental Research (BayCEER), University of Bayreuth, Bayreuth, Germany
| | - Satoshi Yamashita
- Graduate School of Technology, Industrial and Social Sciences, Tokushima University, Minami-Josanjima, Tokushima, Japan
| | - Nitaro Maekawa
- Faculty of Agriculture, Tottori University, Koyamaminami, Tottori, Japan
| | - Masayuki Maki
- Botanical Gardens, Tohoku University, Aoba-ku, Sendai, Japan
| | - Shiro Isshiki
- Faculty of Agriculture, Saga University, Saga, Japan
| | - Tomohisa Yukawa
- Tsukuba Botanical Garden, National Museum of Nature and Science, Tsukuba, Ibaraki, Japan
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43
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Suetsugu K, Shimaoka C, Fukunaga H, Sawa S. The taxonomic identity of three varieties of Lecanorchis nigricans (Vanilleae, Vanilloideae, Orchidaceae) in Japan. PhytoKeys 2018; 92:17-35. [PMID: 29416409 PMCID: PMC5799736 DOI: 10.3897/phytokeys.92.21657] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/16/2017] [Accepted: 12/15/2017] [Indexed: 06/08/2023]
Abstract
To elucidate the taxonomy of the Lecanorchis nigricans Honda, 1931 species complex, the present study investigated the detailed morphology of three L. nigricans varieties in Japan. While L. nigricans var. patipetala Y.Sawa, 1980 and L. nigricans var. yakusimensis T.Hashim., 1990 have often been treated as synonyms of L. nigricans var. nigricans, the present study demonstrates that the three varieties are morphologically distinct. More specifically, L. nigricans var. nigricans only produces complete cleistogamous flowers and is distinct from the plants currently called "L. nigricans", which are identical to the chasmogamous variety L. nigricans var. patipetala. The other chasmogamous variety L. nigricans var. yakusimensis can be easily distinguished from L. nigricans var. patipetala by its more spatulate tepals and higher cucullate lip. Therefore, the present study provides emended description of the three L. nigricans varieties based on type specimens and specimens collected from type localities. In addition, the isotype specimen of L. nigricans var. patipetala is designated as the lectotype because the holotype has been lost.
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Affiliation(s)
- Kenji Suetsugu
- Department of Biology, Graduate School of Science, Kobe University, 1-1 Rokkodai, Nada-ku, Kobe, 657-8501, Japan
| | - Chie Shimaoka
- Graduate School of Science and Technology, Kumamoto University, Kumamoto, Japan
| | | | - Shinichiro Sawa
- Graduate School of Science and Technology, Kumamoto University, Kumamoto, Japan
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44
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Suetsugu K, Tsukaya H, Nurainas N, Okada H. Thismiasumatrana (Thismiaceae), a new species from West Sumatra, Indonesia, with discussions on the taxonomic identity of Thismiaclavigera. PhytoKeys 2018:59-67. [PMID: 30574011 PMCID: PMC6292986 DOI: 10.3897/phytokeys.113.29103] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/15/2018] [Accepted: 11/15/2018] [Indexed: 05/09/2023]
Abstract
A new species of the mycoheterotrophic genus Thismia Griff. (Thismiaceae), Thismiasumatrana Suetsugu & Tsukaya, from West Sumatra, Indonesia, is described, based on a rehydrated herbarium specimen from National Museum of Nature and Science, Japan. Thismiasumatrana is closely related to T.clavigera (Becc.) F.Muell. but is distinguished by a much larger flower.
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Affiliation(s)
- Kenji Suetsugu
- Department of Biology, Graduate School of Science, Kobe University, 1-1 Rokkodai, Nada-ku, Kobe, 657-8501, JapanKobe UniversityKobeJapan
| | - Hirokazu Tsukaya
- Department of Biological Sciences, Faculty of Science, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-0033, JapanThe University of TokyoTokyoJapan
- Bio-Next Project, Exploratory Research Center on Life and Living Systems, National Institutes of Natural Sciences, Yamate Build. #3, 5-1, Higashiyama, Myodaiji, Okazaki, Aichi 444-8787, JapanNational Institutes of Natural SciencesOkazakiJapan
| | - Nurainas Nurainas
- Herbarium Universitas Andalas, The Department of Biology, Faculty of Mathematics and Sciences, Andalas University, Kampus Limau Manis Padang, 25163, West Sumatra, IndonesiaAndalas UniversityWest SumatraIndonesia
| | - Hiroshi Okada
- Institute of Natural Environmental Sciences, University of Hyogo, Sanda, Hyogo 669-1546, JapanUniversity of HyogoKyotanabeJapan
- Osaka City University, Sugimoto, Sumiyoshi-ku, Osaka 558-8585, JapanOsaka City UniversityOsakaJapan
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45
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Shutoh K, Izuno A, Isagi Y, Kurosawa T, Kaneko S. Development of microsatellite markers for partially and putative fully mycoheterotrophic varieties of Pyrola japonica sensu lato (Ericaceae). Genes Genet Syst 2017; 92:99-103. [PMID: 28216509 DOI: 10.1266/ggs.16-00048] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022] Open
Abstract
We developed microsatellite markers to compare the genetic variation and reproductive biology between the partially mycoheterotrophic Pyrola japonica var. japonica and the putative fully mycoheterotrophic P. japonica var. subaphylla. Fifteen primer pairs were developed for P. japonica sensu lato and they were tested on 77 ramets from three populations of the two varieties. Thirteen loci were polymorphic in at least one of the two var. japonica populations, whereas only four loci were polymorphic in the var. subaphylla population. The considerably lower genetic variation of the var. subaphylla population may be attributed to frequent selfing and/or inbreeding. The markers developed in this study will be useful for comparing the genetic diversity of P. japonica s. l. populations and measuring gene flow within and between populations and varieties.
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Affiliation(s)
- Kohtaroh Shutoh
- Graduate School of Symbiotic Systems Science and Technology, Fukushima University
| | - Ayako Izuno
- Graduate School of Agriculture, Kyoto University.,Department of Evolutionary Biology and Environmental Studies, University of Zurich
| | - Yuji Isagi
- Graduate School of Agriculture, Kyoto University
| | | | - Shingo Kaneko
- Faculty of Symbiotic Systems Science, Fukushima University
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46
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Lallemand F, Puttsepp Ü, Lang M, Luud A, Courty PE, Palancade C, Selosse MA. Mixotrophy in Pyroleae (Ericaceae) from Estonian boreal forests does not vary with light or tissue age. Ann Bot 2017; 120:361-371. [PMID: 28575199 PMCID: PMC5591414 DOI: 10.1093/aob/mcx054] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/15/2017] [Revised: 03/23/2017] [Indexed: 05/21/2023]
Abstract
Background and Aims In temperate forests, some green plants, namely pyroloids (Pyroleae, Ericaceae) and some orchids, independently evolved a mode of nutrition mixing photosynthates and carbon gained from their mycorrhizal fungi (mixotrophy). Fungal carbon is more enriched in 13C than photosynthates, allowing estimation of the proportion of carbon acquired heterotrophically from fungi in plant biomass. Based on 13C enrichment, mixotrophic orchids have previously been shown to increase shoot autotrophy level over the growth season and with environmental light availability. But little is known about the plasticity of use of photosynthetic versus fungal carbon in pyroloids. Methods Plasticity of mixotrophy with leaf age or light level (estimated from canopy openness) was investigated in pyroloids from three Estonian boreal forests. Bulk leaf 13C enrichment of five pyroloid species was compared with that of control autotrophic plants along temporal series (over one growth season) and environmental light gradients (n=405 samples). Key Results Mixotrophic 13C enrichment was detected at studied sites for Pyrola chlorantha and Orthilia secunda (except at one site for the latter), but not for Chimaphila umbellata, Pyrola rotundifolia and Moneses uniflora. Enrichment with 13C did not vary over the growth season or between leaves from current and previous years. Finally, although one co-occurring mixotrophic orchid showed 13C depletion with increasing light availability, as expected for mixotrophs, all pyroloids responded identically to autotrophic control plants along light gradients. Conclusions A phylogenetic trend previously observed is further supported: mixotrophy is rarely supported by 13C enrichment in the Chimaphila + Moneses clade, whereas it is frequent in the Pyrola + Orthilia clade. Moreover, pyroloid mixotrophy does not respond plastically to ageing or to light level. This contrasts with the usual view of a convergent evolution with orchids, and casts doubt on the way pyroloids use the carbon gained from their mycorrhizal fungi, especially to replace photosynthetic carbon.
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Affiliation(s)
- Félix Lallemand
- Institut de Systématique, Évolution, Biodiversité (ISYEB), UMR 7205 CNRS MNHN UPMC EPHE, Muséum national d’Histoire naturelle, Sorbonne Universités, 57 rue Cuvier, CP39, 75005 Paris, France
- Master BioSciences, Département de Biologie, École Normale Supérieure de Lyon, Université de Lyon, UCB Lyon1, 46 Allée d’Italie, Lyon, France
| | - Ülle Puttsepp
- Institute of Agricultural and Environmental Sciences, Estonian University of Life Sciences, Street Kreutzwaldi 5, 51014, Tartu, Estonia
| | - Mait Lang
- Institute of Forestry and Rural Engineering, Estonian University of Life Sciences, Street Kreutzwaldi 5, 51014 Tartu, Estonia
- Tartu Observatory, 61602 Tõravere, Tartu County, Estonia
| | - Aarne Luud
- Institute of Agricultural and Environmental Sciences, Estonian University of Life Sciences, Street Kreutzwaldi 5, 51014, Tartu, Estonia
| | - Pierre-Emmanuel Courty
- Agroécologie, AgroSupDijon, CNRS, INRA, Université de Bourgogne Franche-Comté, 21000 Dijon, France and
| | - Cécile Palancade
- Institut de Systématique, Évolution, Biodiversité (ISYEB), UMR 7205 CNRS MNHN UPMC EPHE, Muséum national d’Histoire naturelle, Sorbonne Universités, 57 rue Cuvier, CP39, 75005 Paris, France
| | - Marc-André Selosse
- Institut de Systématique, Évolution, Biodiversité (ISYEB), UMR 7205 CNRS MNHN UPMC EPHE, Muséum national d’Histoire naturelle, Sorbonne Universités, 57 rue Cuvier, CP39, 75005 Paris, France
- Department of Plant Taxonomy and Nature Conservation, University of Gdansk, ul. Wita Stwosza 59, 80-308 Gdańsk, Poland
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Jacquemyn H, Waud M, Brys R, Lallemand F, Courty PE, Robionek A, Selosse MA. Mycorrhizal Associations and Trophic Modes in Coexisting Orchids: An Ecological Continuum between Auto- and Mixotrophy. Front Plant Sci 2017; 8:1497. [PMID: 28912791 PMCID: PMC5583604 DOI: 10.3389/fpls.2017.01497] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/17/2017] [Accepted: 08/14/2017] [Indexed: 05/03/2023]
Abstract
Two distinct nutritional syndromes have been described in temperate green orchids. Most orchids form mycorrhizas with rhizoctonia fungi and are considered autotrophic. Some orchids, however, associate with fungi that simultaneously form ectomycorrhizas with surrounding trees and derive their carbon from these fungi. This evolutionarily derived condition has been called mixotrophy or partial mycoheterotrophy and is characterized by 13C enrichment and high N content. Although it has been suggested that the two major nutritional syndromes are clearly distinct and tightly linked to the composition of mycorrhizal communities, recent studies have challenged this assumption. Here, we investigated whether mycorrhizal communities and nutritional syndromes differed between seven green orchid species that co-occur under similar ecological conditions (coastal dune slacks). Our results showed that mycorrhizal communities differed significantly between orchid species. Rhizoctonia fungi dominated in Dactylorhiza sp., Herminium monorchis, and Epipactis palustris, which were autotrophic based on 13C and N content. Conversely, Liparis loeselii and Epipactis neerlandica associated primarily with ectomycorrhizal fungi but surprisingly, 13C and N content supported mixotrophy only in E. neerlandica. This, together with the finding of some ectomycorrhizal fungi in rhizoctonia-associated orchids, suggests that there exists an ecological continuum between the two syndromes. The presence of a large number of indicator species associating with individual orchid species further confirms previous findings that mycorrhizal fungi may be important factors driving niche-partitioning in terrestrial orchids and therefore contribute to orchid coexistence.
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Affiliation(s)
- Hans Jacquemyn
- Plant Conservation and Population Biology, Department of Biology, KU LeuvenLeuven, Belgium
| | - Michael Waud
- Plant Conservation and Population Biology, Department of Biology, KU LeuvenLeuven, Belgium
| | - Rein Brys
- Research Institute for Forest and NatureGeraardsbergen, Belgium
| | - Félix Lallemand
- Institut de Systématique, Évolution, Biodiversité, UMR 7205, CNRS, MNHN, UPMC, EPHE, Muséum National d’Histoire Naturelle, Sorbonne UniversitésParis, France
| | | | - Alicja Robionek
- The Laboratory of Freshwater Ecology, Department of Plant Ecology, University of GdańskGdańsk, Poland
- Department of Plant Taxonomy and Nature Conservation, University of GdańskGdańsk, Poland
| | - Marc-André Selosse
- Institut de Systématique, Évolution, Biodiversité, UMR 7205, CNRS, MNHN, UPMC, EPHE, Muséum National d’Histoire Naturelle, Sorbonne UniversitésParis, France
- Department of Plant Taxonomy and Nature Conservation, University of GdańskGdańsk, Poland
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48
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Renny M, Acosta MC, Cofré N, Domínguez LS, Bidartondo MI, Sérsic AN. Genetic diversity patterns of arbuscular mycorrhizal fungi associated with the mycoheterotroph Arachnitis uniflora Phil. (Corsiaceae). Ann Bot 2017; 119:1279-1294. [PMID: 28398457 PMCID: PMC5604589 DOI: 10.1093/aob/mcx023] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/06/2016] [Accepted: 02/14/2017] [Indexed: 05/30/2023]
Abstract
Background and Aims Arachnitis uniflora is a mycoheterotrophic plant that exploits arbuscular mycorrhizal fungi of neighbouring plants. We tested A. uniflora 's specificity towards fungi across its large latitudinal range, as well as the role of historical events and current environmental, geographical and altitudinal variables on fungal genetic diversity. Methods Arachnitis uniflora mycorrhizas were sampled at 25 sites. Fungal phylogenetic relationships were reconstructed, genetic diversity was calculated and the main divergent lineages were dated. Phylogeographical analysis was performed with the main fungal clade. Fungal diversity correlations with environmental factors were investigated. Key Results Glomeraceae fungi dominated, with a main clade that likely originated in the Upper Cretaceous and diversified in the Miocene. Two other arbuscular mycorrhizal fungal families not previously known to be targeted by A. uniflora were detected rarely and appear to be facultative associations. High genetic diversity, found in Bolivia and both northern and southern Patagonia, was correlated with temperature, rainfall and soil features. Conclusions Fungal genetic diversity and its distribution can be explained by the ancient evolutionary history of the target fungi and by micro-scale environmental conditions with a geographical mosaic pattern.
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Affiliation(s)
- Mauricio Renny
- Instituto Multidisciplinario de Biología Vegetal, IMBIV, UNC-CONICET, Edificio de Investigaciones Biológicas y Tecnológicas, Vélez Sársfield 1611, 5000 Córdoba, Argentina
| | - M. Cristina Acosta
- Instituto Multidisciplinario de Biología Vegetal, IMBIV, UNC-CONICET, Edificio de Investigaciones Biológicas y Tecnológicas, Vélez Sársfield 1611, 5000 Córdoba, Argentina
| | - Noelia Cofré
- Instituto Multidisciplinario de Biología Vegetal, IMBIV, UNC-CONICET, Edificio de Investigaciones Biológicas y Tecnológicas, Vélez Sársfield 1611, 5000 Córdoba, Argentina
| | - Laura S. Domínguez
- Instituto Multidisciplinario de Biología Vegetal, IMBIV, UNC-CONICET, Edificio de Investigaciones Biológicas y Tecnológicas, Vélez Sársfield 1611, 5000 Córdoba, Argentina
| | - Martin I. Bidartondo
- Department of Life Sciences, Imperial College London, London SW7 2AZ, UK
- Jodrell Laboratory, Royal Botanic Gardens, Kew TW9 3DS, UK
| | - Alicia N. Sérsic
- Instituto Multidisciplinario de Biología Vegetal, IMBIV, UNC-CONICET, Edificio de Investigaciones Biológicas y Tecnológicas, Vélez Sársfield 1611, 5000 Córdoba, Argentina
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49
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Johansson VA, Bahram M, Tedersoo L, Kõljalg U, Eriksson O. Specificity of fungal associations of Pyroleae and Monotropa hypopitys during germination and seedling development. Mol Ecol 2017; 26:2591-2604. [PMID: 28173637 DOI: 10.1111/mec.14050] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2016] [Revised: 11/23/2016] [Accepted: 01/17/2017] [Indexed: 01/15/2023]
Abstract
Mycoheterotrophic plants obtain organic carbon from associated mycorrhizal fungi, fully or partially. Angiosperms with this form of nutrition possess exceptionally small 'dust seeds' which after germination develop 'seedlings' that remain subterranean for several years, fully dependent on fungi for supply of carbon. Mycoheterotrophs which as adults have photosynthesis thus develop from full to partial mycoheterotrophy, or autotrophy, during ontogeny. Mycoheterotrophic plants may represent a gradient of variation in a parasitism-mutualism continuum, both among and within species. Previous studies on plant-fungal associations in mycoheterotrophs have focused on either germination or the adult life stages of the plant. Much less is known about the fungal associations during development of the subterranean seedlings. We investigated germination and seedling development and the diversity of fungi associated with germinating seeds and subterranean seedlings (juveniles) in five Monotropoideae (Ericaceae) species, the full mycoheterotroph Monotropa hypopitys and the putatively partial mycoheterotrophs Pyrola chlorantha, P. rotundifolia, Moneses uniflora and Chimaphila umbellata. Seedlings retrieved from seed sowing experiments in the field were used to examine diversity of fungal associates, using pyrosequencing analysis of ITS2 region for fungal identification. The investigated species varied with regard to germination, seedling development and diversity of associated fungi during juvenile ontogeny. Results suggest that fungal host specificity increases during juvenile ontogeny, most pronounced in the fully mycoheterotrophic species, but a narrowing of fungal associates was found also in two partially mycoheterotrophic species. We suggest that variation in specificity of associated fungi during seedling ontogeny in mycoheterotrophs represents ongoing evolution along a parasitism-mutualism continuum.
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Affiliation(s)
- V A Johansson
- Department of Ecology, Environment and Plant Sciences, Stockholm University, SE 106 91, Stockholm, Sweden
| | - M Bahram
- Institute of Ecology and Earth Sciences, University of Tartu, 51005, Tartu, Estonia.,Department of Organismal Biology, Uppsala University, SE 75236, Uppsala, Sweden
| | - L Tedersoo
- Institute of Ecology and Earth Sciences, University of Tartu, 51005, Tartu, Estonia
| | - U Kõljalg
- Institute of Ecology and Earth Sciences, University of Tartu, 51005, Tartu, Estonia
| | - O Eriksson
- Department of Ecology, Environment and Plant Sciences, Stockholm University, SE 106 91, Stockholm, Sweden
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50
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Suetsugu K, Yamato M, Miura C, Yamaguchi K, Takahashi K, Ida Y, Shigenobu S, Kaminaka H. Comparison of green and albino individuals of the partially mycoheterotrophic orchid Epipactis helleborine on molecular identities of mycorrhizal fungi, nutritional modes and gene expression in mycorrhizal roots. Mol Ecol 2017; 26:1652-1669. [PMID: 28099773 DOI: 10.1111/mec.14021] [Citation(s) in RCA: 43] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/11/2016] [Revised: 12/24/2016] [Accepted: 01/04/2017] [Indexed: 01/01/2023]
Abstract
Some green orchids obtain carbon from their mycorrhizal fungi, as well as from photosynthesis. These partially mycoheterotrophic orchids sometimes produce fully achlorophyllous, leaf-bearing (albino) variants. Comparing green and albino individuals of these orchids will help to uncover the molecular mechanisms associated with mycoheterotrophy. We compared green and albino Epipactis helleborine by molecular barcoding of mycorrhizal fungi, nutrient sources based on 15 N and 13 C abundances and gene expression in their mycorrhizae by RNA-seq and cDNA de novo assembly. Molecular identification of mycorrhizal fungi showed that green and albino E. helleborine harboured similar mycobionts, mainly Wilcoxina. Stable isotope analyses indicated that albino E. helleborine plants were fully mycoheterotrophic, whereas green individuals were partially mycoheterotrophic. Gene expression analyses showed that genes involved in antioxidant metabolism were upregulated in the albino variants, which indicates that these plants experience greater oxidative stress than the green variants, possibly due to a more frequent lysis of intracellular pelotons. It was also found that some genes involved in the transport of some metabolites, including carbon sources from plant to fungus, are higher in albino than in green variants. This result may indicate a bidirectional carbon flow even in the mycoheterotrophic symbiosis. The genes related to mycorrhizal symbiosis in autotrophic orchids and arbuscular mycorrhizal plants were also upregulated in the albino variants, indicating the existence of common molecular mechanisms among the different mycorrhizal types.
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Affiliation(s)
- Kenji Suetsugu
- Department of Biology, Graduate School of Science, Kobe University, 1-1 Rokkodai, Nada-ku, Kobe, 657-8501, Japan
| | - Masahide Yamato
- Department of Science Education, Faculty of Education, Chiba University, 1-33 Yayoi-cho, Inage-ku, Chiba, 263-8522, Japan
| | - Chihiro Miura
- Faculty of Agriculture, Tottori University, 4-101 Koyama-cho Minami, Tottori, 680-8553, Japan
| | - Katsushi Yamaguchi
- Functional Genomics Facility, NIBB Core Research Facilities, National Institute for Basic Biology, Okazaki, 444-8585, Japan
| | - Kazuya Takahashi
- Department of Science Education, Faculty of Education, Chiba University, 1-33 Yayoi-cho, Inage-ku, Chiba, 263-8522, Japan
| | - Yoshiko Ida
- Graduate School of Agriculture, Tottori University, 4-101 Koyama-cho Minami, Tottori, 680-8553, Japan
| | - Shuji Shigenobu
- Functional Genomics Facility, NIBB Core Research Facilities, National Institute for Basic Biology, Okazaki, 444-8585, Japan
| | - Hironori Kaminaka
- Faculty of Agriculture, Tottori University, 4-101 Koyama-cho Minami, Tottori, 680-8553, Japan
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