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Suissa JS, Friedman WE. Rapid diversification of vascular architecture underlies the Carboniferous fern radiation. Proc Biol Sci 2022; 289:20212209. [PMID: 35473384 PMCID: PMC9043699 DOI: 10.1098/rspb.2021.2209] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
Vascular plants account for 93% of Earth's terrestrial flora. Xylem and phloem, vital for transporting water and nutrients through the plant, unite this diverse clade. Three-dimensional arrangements of these tissues (vascular architecture) are manifold across living and extinct species. However, the evolutionary processes underlying this variation remain elusive. Using ferns, a diverse clade with multiple radiations over their ca 400-million-year history, we synthesized data across 3339 species to explore the tempo and mode of vascular evolution and to contextualize dynamics of phenotypic innovation during major fern diversification events. Our results reveal three paradigm shifts in our understanding of fern vascular evolution. (i) The canonical theory on the stepwise and unidirectional evolution of vascular architecture does not capture the complexities of character evolution among ferns. Rather, a new model permitting additional transitions, rate heterogeneity and multiple reversions is more likely. (ii) Major shifts in vascular architecture correspond to developmental changes in body size, not regional water availability. (iii) The early Carboniferous radiation of crown-group ferns was characterized by an explosion of phenotypic innovation. By contrast, during the Cretaceous and Cenozoic rise of eupolypods, rates of vascular evolution were dramatically low and seemingly decoupled from lineage diversification.
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Affiliation(s)
- Jacob S Suissa
- The Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA 02138, USA.,The Arnold Arboretum of Harvard University Boston, Boston, MA 02131, USA
| | - William E Friedman
- The Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA 02138, USA.,The Arnold Arboretum of Harvard University Boston, Boston, MA 02131, USA
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2
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Toussaint EFA, White LT, Shaverdo H, Lam A, Surbakti S, Panjaitan R, Sumoked B, von Rintelen T, Sagata K, Balke M. New Guinean orogenic dynamics and biota evolution revealed using a custom geospatial analysis pipeline. BMC Ecol Evol 2021; 21:51. [PMID: 33823805 PMCID: PMC8022562 DOI: 10.1186/s12862-021-01764-2] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/18/2020] [Accepted: 02/09/2021] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND The New Guinean archipelago has been shaped by millions of years of plate tectonic activity combined with long-term fluctuations in climate and sea level. These processes combined with New Guinea's location at the tectonic junction between the Australian and Pacific plates are inherently linked to the evolution of its rich endemic biota. With the advent of molecular phylogenetics and an increasing amount of geological data, the field of New Guinean biogeography begins to be reinvigorated. RESULTS We inferred a comprehensive dated molecular phylogeny of endemic diving beetles to test historical hypotheses pertaining to the evolution of the New Guinean biota. We used geospatial analysis techniques to compare our phylogenetic results with a newly developed geological terrane map of New Guinea as well as the altitudinal and geographic range of species ( https://arcg.is/189zmz ). Our divergence time estimations indicate a crown age (early diversification) for New Guinea Exocelina beetles in the mid-Miocene ca. 17 Ma, when the New Guinean orogeny was at an early stage. Geographic and geological ancestral state reconstructions suggest an origin of Exocelina ancestors on the eastern part of the New Guinean central range on basement rocks (with a shared affinity with the Australian Plate). Our results do not support the hypothesis of ancestors migrating to the northern margin of the Australian Plate from Pacific terranes that incrementally accreted to New Guinea over time. However, our analyses support to some extent a scenario in which Exocelina ancestors would have been able to colonize back and forth between the amalgamated Australian and Pacific terranes from the Miocene onwards. Our reconstructions also do not support an origin on ultramafic or ophiolite rocks that have been colonized much later in the evolution of the radiation. Macroevolutionary analyses do not support the hypothesis of heterogeneous diversification rates throughout the evolution of this radiation, suggesting instead a continuous slowdown in speciation. CONCLUSIONS Overall, our geospatial analysis approach to investigate the links between the location and evolution of New Guinea's biota with the underlying geology sheds a new light on the patterns and processes of lineage diversification in this exceedingly diverse region of the planet.
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Affiliation(s)
| | - Lloyd T White
- GeoQuEST Research Centre, School of Earth, Atmospheric and Life Sciences, University of Wollongong, Wollongong, NSW, 2522, Australia
| | - Helena Shaverdo
- Naturhistorisches Museum Wien, Burgring 7, 1010, Vienna, Austria
| | - Athena Lam
- SNSB-Zoologische Staatssammlung München, Munich, Germany
- Department of Environmental Science, Policy and Management, University of California, Berkeley, CA, USA
- Institute for Biodiversity Science and Sustainability, California Academy of Sciences, San Francisco, CA, USA
| | - Suriani Surbakti
- Department of Biology, Universitas Cenderawasih (UNCEN), Waena, Papua, Indonesia
| | - Rawati Panjaitan
- Department of Biology, Faculty of Sciences and Mathematics, State University of Papua (UNIPA), Jalan Gunung Salju Amban, Manokwari, 98314, West Papua, Indonesia
| | - Bob Sumoked
- Walian 2, Tomohon Selatan, 95439, N Sulawesi, Indonesia
| | - Thomas von Rintelen
- Museum Für Naturkunde - Leibniz Institute for Evolution and Biodiversity Science, Invalidenstraße 43, 10115, Berlin, Germany
| | - Katayo Sagata
- University of Papua New Guinea, Port Moresby, Papua New Guinea
| | - Michael Balke
- SNSB-Zoologische Staatssammlung München, Munich, Germany.
- Department of Entomology, SNSB-Zoologische Staatssammlung München, Münchhausenstrasse 21, 81247, Munich, Germany.
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Villastrigo A, Abellán P, Ribera I. Habitat preference and diversification rates in a speciose lineage of diving beetles. Mol Phylogenet Evol 2021; 159:107087. [PMID: 33545273 DOI: 10.1016/j.ympev.2021.107087] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2020] [Revised: 01/25/2021] [Accepted: 01/26/2021] [Indexed: 11/24/2022]
Abstract
The long-term geological stability of aquatic habitats has been demonstrated to be a determinant in the evolution of macroinvertebrate fauna, with species in running (lotic) waters having lower dispersal abilities, smaller ranges and higher gene flow between populations than species in standing (lentic) environments. Lotic species have been hypothesized to be more specialised, but the diversification dynamics of both habitat types have not been studied in detail. Using a speciose lineage of water beetles we test here whether diversification rates are related to the habitat preference of the species and its consequences on turnover, which we expect to be higher for lotic taxa. Moreover, we tested whether life in lotic environments is acting as an evolutionary dead-end as it is considered an ecological specialisation. We built a comprehensive molecular phylogeny with 473 terminals representing 421 of the 689 known species of the tribe Hydroporini (Coleoptera, Dytiscidae), using a combination of sequences from four mitochondrial and two nuclear genes plus 69 mitogenomes obtained with NGS. We found a general pattern of gradual acceleration of diversification rate with time, with 2-3 significant diversification shifts. However, habitat is not the main factor driving diversification in Hydroporini based on SecSSE analyses. The most recent common ancestor of Hydroporini was reconstructed as a lotic species, with multiple shifts to lentic environments. Most frequent transitions were estimated from lentic and lotic habitats to the category "both", followed by transitions from lotic to lentic and lentic to lotic respectively, although with very similar rates. Contrary to expectations, we found little evidence for differences in diversification dynamics between habitats, with lotic environments clearly not acting as evolutionary dead-ends in Hydroporini.
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Affiliation(s)
- Adrián Villastrigo
- Institute of Evolutionary Biology (CSIC-Universitat Pompeu Fabra), Barcelona, Spain.
| | | | - Ignacio Ribera
- Institute of Evolutionary Biology (CSIC-Universitat Pompeu Fabra), Barcelona, Spain
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4
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Magalhaes ILF, Azevedo GHF, Michalik P, Ramírez MJ. The fossil record of spiders revisited: implications for calibrating trees and evidence for a major faunal turnover since the Mesozoic. Biol Rev Camb Philos Soc 2020; 95:184-217. [PMID: 31713947 DOI: 10.1111/brv.12559] [Citation(s) in RCA: 42] [Impact Index Per Article: 10.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2019] [Revised: 09/06/2019] [Accepted: 09/10/2019] [Indexed: 01/24/2023]
Abstract
Studies in evolutionary biology and biogeography increasingly rely on the estimation of dated phylogenetic trees using molecular clocks. In turn, the calibration of such clocks is critically dependent on external evidence (i.e. fossils) anchoring the ages of particular nodes to known absolute ages. In recent years, a plethora of new fossil spiders, especially from the Mesozoic, have been described, while the number of studies presenting dated spider phylogenies based on fossil calibrations increased sharply. We critically evaluate 44 of these studies, which collectively employed 67 unique fossils in 180 calibrations. Approximately 54% of these calibrations are problematic, particularly regarding unsupported assignment of fossils to extant clades (44%) and crown (rather than stem) dating (9%). Most of these cases result from an assumed equivalence between taxonomic placement of fossils and their phylogenetic position. To overcome this limitation, we extensively review the literature on fossil spiders, with a special focus on putative synapomorphies and the phylogenetic placement of fossil species with regard to their importance for calibrating higher taxa (families and above) in the spider tree of life. We provide a curated list including 41 key fossils intended to be a basis for future estimations of dated spider phylogenies. In a second step, we use a revised set of 23 calibrations to estimate a new dated spider tree of life based on transcriptomic data. The revised placement of key fossils and the new calibrated tree are used to resolve a long-standing debate in spider evolution - we tested whether there has been a major turnover in the spider fauna between the Mesozoic and Cenozoic. At least 17 (out of 117) extant families have been recorded from the Cretaceous, implying that at least 41 spider lineages in the family level or above crossed the Cretaeous-Paleogene (K-Pg) boundary. The putative phylogenetic affinities of families known only from the Mesozoic suggest that at least seven Cretaceous families appear to have no close living relatives and might represent extinct lineages. There is no unambiguous fossil evidence of the retrolateral tibial apophysis clade (RTA-clade) in the Mesozoic, although molecular clock analyses estimated the major lineages within this clade to be at least ∼100 million years old. Our review of the fossil record supports a major turnover showing that the spider faunas in the Mesozoic and the Cenozoic are very distinct at high taxonomic levels, with the Mesozoic dominated by Palpimanoidea and Synspermiata, while the Cenozoic is dominated by Araneoidea and RTA-clade spiders.
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Affiliation(s)
- Ivan L F Magalhaes
- División Aracnología, Museo Argentino de Ciencias Naturales "Bernardino Rivadavia" - CONICET, Av. Ángel Gallardo 470, Buenos Aires, C1405DJR, Argentina
| | - Guilherme H F Azevedo
- División Aracnología, Museo Argentino de Ciencias Naturales "Bernardino Rivadavia" - CONICET, Av. Ángel Gallardo 470, Buenos Aires, C1405DJR, Argentina
| | - Peter Michalik
- Zoologisches Institut und Museum, Universität Greifswald, Loitzer Straβe 26, Greifswald, D-17489, Germany
| | - Martín J Ramírez
- División Aracnología, Museo Argentino de Ciencias Naturales "Bernardino Rivadavia" - CONICET, Av. Ángel Gallardo 470, Buenos Aires, C1405DJR, Argentina
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5
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Villastrigo A. Digest: Insights into diatoms diversity patterns. Evolution 2019; 73:2542-2543. [PMID: 31705543 DOI: 10.1111/evo.13877] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/30/2019] [Accepted: 10/14/2019] [Indexed: 11/29/2022]
Abstract
Biological diversity is not equally distributed across the Tree of Life, and the causes are not yet well defined. Nakov et al. investigate this by exploring the reasons behind diatoms' uneven species richness across different environments. Simple traits are not enough to fully understand the variation in diatoms' species richness. Therefore, investigating the role of habitat may improve our understanding of biodiversity patterns.
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Affiliation(s)
- Adrián Villastrigo
- Water and Cave Beetle Evolution Lab, Institute of Evolutionary Biology (CSIC-Universitat Pompeu Fabra), Barcelona, 08003, Spain
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6
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Voje KL. Testing eco-evolutionary predictions using fossil data: Phyletic evolution following ecological opportunity. Evolution 2019; 74:188-200. [PMID: 31461158 DOI: 10.1111/evo.13838] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/01/2019] [Revised: 07/02/2019] [Accepted: 07/15/2019] [Indexed: 01/20/2023]
Abstract
Fossil sequences provide observations of phenotypes within a lineage over time and represent essential data for increasing our understanding of phyletic evolution beyond microevolutionary timescales. I investigate if fossil time series of the diatom Stephanodiscus niagarae/yellowstonensis follow evolutionary dynamics compatible with hypotheses for how the adaptive landscape changes when a population enters a new environment. The lineage-which has a remarkably detailed stratigraphic record-invaded Yellowstone Lake immediately after recession of ice from the basin 14,000 years ago. Several phyletic models portraying different types of evolutionary dynamics-both compatible and not compatible with changes in the adaptive landscape following ecological opportunity-were fitted to the fossil times-series of S. niagarae/yellowstonensis. Different models best describe the three analyzed traits. Two of the models (a new model of decelerated evolution and an Ornstein-Uhlenbeck model) capture trait dynamics compatible with an event of ecological opportunity, whereas the third model (random walk) does not. Entering a new environment may accordingly affect trait dynamics for thousands of years, but the effects can vary across phenotypes. However, tests of model adequacy reveal shortcomings in all three models explaining the trait dynamics, suggesting model development is needed to more fully understand the phyletic evolution in S. niagarae/yellowstonensis.
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Affiliation(s)
- Kjetil Lysne Voje
- Centre for Ecological and Evolutionary Synthesis (CEES), Department of Biosciences, University of Oslo, Oslo, Norway
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7
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Bilton DT, Ribera I, Short AEZ. Water Beetles as Models in Ecology and Evolution. ANNUAL REVIEW OF ENTOMOLOGY 2019; 64:359-377. [PMID: 30629892 DOI: 10.1146/annurev-ento-011118-111829] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
Beetles have colonized water many times during their history, with some of these events involving extensive evolutionary radiations and multiple transitions between land and water. With over 13,000 described species, they are one of the most diverse macroinvertebrate groups in most nonmarine aquatic habitats and occur on all continents except Antarctica. A combination of wide geographical and ecological range and relatively accessible taxonomy makes these insects an excellent model system for addressing a variety of questions in ecology and evolution. Work on water beetles has recently made important contributions to fields as diverse as DNA taxonomy, macroecology, historical biogeography, sexual selection, and conservation biology, as well as predicting organismal responses to global change. Aquatic beetles have some of the best resolved phylogenies of any comparably diverse insect group, and this, coupled with recent advances in taxonomic and ecological knowledge, is likely to drive an expansion of studies in the future.
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Affiliation(s)
- David T Bilton
- Marine Biology and Ecology Research Centre, School of Biological and Marine Sciences, University of Plymouth, Plymouth PL4 8AA, United Kingdom;
| | - Ignacio Ribera
- Institute of Evolutionary Biology (CSIC-Pompeu Fabra University), 08003 Barcelona, Spain;
| | - Andrew Edward Z Short
- Department of Ecology and Evolutionary Biology; and Division of Entomology, Biodiversity Institute, University of Kansas, Lawrence, Kansas 66045, USA;
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8
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Pakulnicka J, Zawal A. Effect of changes in the fractal structure of a littoral zone in the course of lake succession on the abundance, body size sequence and biomass of beetles. PeerJ 2018; 6:e5662. [PMID: 30280034 PMCID: PMC6163033 DOI: 10.7717/peerj.5662] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2018] [Accepted: 08/29/2018] [Indexed: 11/20/2022] Open
Abstract
Dystrophic lakes undergo natural disharmonic succession, in the course of which an increasingly complex and diverse, mosaic-like pattern of habitats evolves. In the final seral stage, the most important role is played by a spreading Sphagnum mat, which gradually reduces the lake's open water surface area. Long-term transformations in the primary structure of lakes cause changes in the structure of lake-dwelling fauna assemblages. Knowledge of the succession mechanisms in lake fauna is essential for proper lake management. The use of fractal concepts helps to explain the character of fauna in relation to other aspects of the changing complexity of habitats. Our 12-year-long study into the succession of water beetles has covered habitats of 40 selected lakes which are diverse in terms of the fractal dimension. The taxonomic diversity and density of lake beetles increase parallel to an increase in the fractal dimension. An in-depth analysis of the fractal structure proved to be helpful in explaining the directional changes in fauna induced by the natural succession of lakes. Negative correlations appear between the body size and abundance. An increase in the density of beetles within the higher dimension fractals is counterbalanced by a change in the size of individual organisms. As a result, the biomass is constant, regardless of the fractal dimension.
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Affiliation(s)
- Joanna Pakulnicka
- Department of Ecology and Environmental Protection, Faculty of Biology and Biotechnology, University of Warmia and Mazury Olsztyn, Olsztyn, Poland
| | - Andrzej Zawal
- Department of Invertebrate Zoology and Limnology, Institute for Research for Biodiversity, Centre of Molecular Biology and Biotechnology, Faculty of Biology, University of Szczecin, Szczecin, Poland
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9
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Lam A, Toussaint EFA, Kindler C, Van Dam MH, Panjaitan R, Roderick GK, Balke M. Stream flow alone does not predict population structure of diving beetles across complex tropical landscapes. Mol Ecol 2018; 27:3541-3554. [PMID: 30030868 DOI: 10.1111/mec.14807] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2017] [Revised: 06/19/2018] [Accepted: 06/20/2018] [Indexed: 01/30/2023]
Abstract
Recent theoretical advances have hypothesized a central role of habitat persistence on population genetic structure and resulting biodiversity patterns of freshwater organisms. Here, we address the hypothesis that lotic species, or lineages adapted to comparably geologically stable running water habitats (streams and their marginal habitats), have high levels of endemicity and phylogeographic structure due to the persistent nature of their habitat. We use a nextRAD DNA sequencing approach to investigate the population structure and phylogeography of a putatively widespread New Guinean species of diving beetle, Philaccolilus ameliae (Dytiscidae). We find that P. ameliae is a complex of morphologically cryptic, but geographically and genetically well-differentiated clades. The pattern of population connectivity is consistent with theoretical predictions associated with stable lotic habitats. However, in two clades, we find a more complex pattern of low population differentiation, revealing dispersal across rugged mountains and watersheds of New Guinea up to 430 km apart. These results, while surprising, were also consistent with the original formulation of the habitat template concept by Southwood, involving lineage-idiosyncratic evolution in response to abiotic factors. In our system, low population differentiation might reflect a young species in a phase of range expansion utilizing vast available habitat. We suggest that predictions of life history variation resulting from the dichotomy between lotic and lentic organisms require more attention to habitat characterization and microhabitat choice. Our results also underpin the necessity to study fine-scale processes but at a larger geographical scale, as compared to solely documenting macroecological patterns, to understand ecological drivers of regional biodiversity. Comprehensive sampling especially of tropical lineages in complex and threatened environments such as New Guinea remains a critical challenge.
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Affiliation(s)
- Athena Lam
- SNSB-Zoologische Staatssammlung München, Munich, Germany.,Department of Environmental Science, Policy and Management, University of California, Berkeley, California.,Institute for Biodiversity Science and Sustainability, California Academy of Sciences, San Francisco, California
| | | | | | - Matthew H Van Dam
- SNSB-Zoologische Staatssammlung München, Munich, Germany.,Department of Environmental Science, Policy and Management, University of California, Berkeley, California.,Institute for Biodiversity Science and Sustainability, California Academy of Sciences, San Francisco, California
| | - Rawati Panjaitan
- Department of Biology, Faculty of Sciences and Mathematics, State University of Papua (UNIPA), Manokwari, West Papua, Indonesia
| | - George K Roderick
- Department of Environmental Science, Policy and Management, University of California, Berkeley, California
| | - Michael Balke
- SNSB-Zoologische Staatssammlung München, Munich, Germany.,GeoBioCenter, Ludwig-Maximilians-University, München, Germany
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