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Baldwin BG, Wood KR, Freyman WA. Directionally biased habitat shifts and biogeographically informative cytonuclear discordance in the Hawaiian silversword alliance (Compositae). Am J Bot 2021; 108:2015-2037. [PMID: 34694624 DOI: 10.1002/ajb2.1757] [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] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/04/2021] [Revised: 07/12/2021] [Accepted: 07/12/2021] [Indexed: 06/13/2023]
Abstract
PREMISE Expanded phylogenetic analyses of the Hawaiian silversword alliance (Argyroxiphium, Dubautia, Wilkesia; Compositae) were undertaken to assess evolutionary and biogeographic informativeness of cytonuclear discordance and any biases in evolutionary directionality of ecological transitions within this prominent example of adaptive radiation. METHODS Samples spanning the geographic and ecological distributions of all recognized taxa were included in phylogenetic and biogeographic analyses of nuclear ribosomal DNA (nrDNA) and cpDNA sequences. Bayesian model testing approaches were used to model ecological evolution and the evolution of nuclear chromosomal arrangements while accounting for phylogenetic uncertainty. RESULTS Cytonuclear discordance detected previously appears to reflect chloroplast capture, at least in part, with nrDNA trees being largely congruent with nuclear chromosomal structural data and fine-scale taxonomy. Comparison of biogeographic histories estimated from the posterior distributions of nrDNA and cpDNA trees, including inferred chloroplast-capture events, provides additional resolution of dispersal history, including a back-dispersal to Maui Nui from Hawai'i. A newly resolved major nrDNA clade of endemic Kaua'i taxa that mostly were described as new-to-science since the 1980s strengthens the earlier hypothesis that diversification on Kaua'i has not waned since the island began to decline in area through subsidence and erosion. Bias in habitat shifts was estimated, with transitions from dry-to-mesic or -wet and from wet-to-mesic or -bog habitats dominating diversification of the silversword alliance from a dry-adapted tarweed ancestor. CONCLUSIONS The habitat-transition biases estimated here may indicate more limited pathways of ecological evolution than proposed previously for an adaptive radiation involving such major ecological shifts.
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Affiliation(s)
- Bruce G Baldwin
- Jepson Herbarium and Department of Integrative Biology, 1001 Valley Life Sciences Building #2465, University of California, Berkeley, California, 94720-2465, USA
| | - Kenneth R Wood
- National Tropical Botanical Garden, 3530 Papalina Road, Kalaheo, Hawaii, 96741, USA
| | - William A Freyman
- Jepson Herbarium and Department of Integrative Biology, 1001 Valley Life Sciences Building #2465, University of California, Berkeley, California, 94720-2465, USA
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Rincon-Sandoval M, Duarte-Ribeiro E, Davis AM, Santaquiteria A, Hughes LC, Baldwin CC, Soto-Torres L, Acero P A, Walker HJ, Carpenter KE, Sheaves M, Ortí G, Arcila D, Betancur-R R. Evolutionary determinism and convergence associated with water-column transitions in marine fishes. Proc Natl Acad Sci U S A 2020; 117:33396-33403. [PMID: 33328271 PMCID: PMC7777220 DOI: 10.1073/pnas.2006511117] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023] Open
Abstract
Repeatable, convergent outcomes are prima facie evidence for determinism in evolutionary processes. Among fishes, well-known examples include microevolutionary habitat transitions into the water column, where freshwater populations (e.g., sticklebacks, cichlids, and whitefishes) recurrently diverge toward slender-bodied pelagic forms and deep-bodied benthic forms. However, the consequences of such processes at deeper macroevolutionary scales in the marine environment are less clear. We applied a phylogenomics-based integrative, comparative approach to test hypotheses about the scope and strength of convergence in a marine fish clade with a worldwide distribution (snappers and fusiliers, family Lutjanidae) featuring multiple water-column transitions over the past 45 million years. We collected genome-wide exon data for 110 (∼80%) species in the group and aggregated data layers for body shape, habitat occupancy, geographic distribution, and paleontological and geological information. We also implemented approaches using genomic subsets to account for phylogenetic uncertainty in comparative analyses. Our results show independent incursions into the water column by ancestral benthic lineages in all major oceanic basins. These evolutionary transitions are persistently associated with convergent phenotypes, where deep-bodied benthic forms with truncate caudal fins repeatedly evolve into slender midwater species with furcate caudal fins. Lineage diversification and transition dynamics vary asymmetrically between habitats, with benthic lineages diversifying faster and colonizing midwater habitats more often than the reverse. Convergent ecological and functional phenotypes along the benthic-pelagic axis are pervasive among different lineages and across vastly different evolutionary scales, achieving predictable high-fitness solutions for similar environmental challenges, ultimately demonstrating strong determinism in fish body-shape evolution.
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Affiliation(s)
- Melissa Rincon-Sandoval
- Department of Biology, The University of Oklahoma, Norman, OK 73019
- Universidad Nacional de Colombia sede Caribe, Centro de Estudios en Ciencias del Mar (CECIMAR), Santa Marta, Magdalena, Colombia
| | | | - Aaron M Davis
- Centre for Tropical Water and Aquatic Ecosystem Research, School of Marine and Tropical Biology, James Cook University, Townsville, QLD 4811, Australia
| | | | - Lily C Hughes
- Department of Biological Sciences, The George Washington University, Washington, DC 20052
- Department of Vertebrate Zoology, National Museum of Natural History, Smithsonian Institution, Washington, DC 20560
| | - Carole C Baldwin
- Department of Vertebrate Zoology, National Museum of Natural History, Smithsonian Institution, Washington, DC 20560
| | - Luisángely Soto-Torres
- Department of Biology, Universidad de Puerto Rico-Rio Piedras, San Juan Puerto Rico, 00931
| | - Arturo Acero P
- Universidad Nacional de Colombia sede Caribe, Centro de Estudios en Ciencias del Mar (CECIMAR), Santa Marta, Magdalena, Colombia
| | - H J Walker
- Scripps Institution of Oceanography, University of California San Diego, La Jolla, CA 92093-0244
| | | | - Marcus Sheaves
- Marine Data Technology Hub, James Cook University, Townsville, QLD 4811, Australia
| | - Guillermo Ortí
- Department of Biological Sciences, The George Washington University, Washington, DC 20052
- Department of Vertebrate Zoology, National Museum of Natural History, Smithsonian Institution, Washington, DC 20560
| | - Dahiana Arcila
- Department of Biology, The University of Oklahoma, Norman, OK 73019
- Department of Ichthyology, Sam Noble Oklahoma Museum of Natural History, Norman, OK
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Bouchenak-Khelladi Y, Linder HP. Frequent and parallel habitat transitions as driver of unbounded radiations in the Cape flora. Evolution 2017; 71:2548-2561. [PMID: 28884804 DOI: 10.1111/evo.13364] [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: 09/30/2016] [Revised: 08/25/2017] [Accepted: 08/29/2017] [Indexed: 01/20/2023]
Abstract
The enormous species richness in the Cape Floristic Region (CFR) of Southern Africa is the result of numerous radiations, but the temporal progression and possible mechanisms of these radiations are still poorly understood. Here, we explore the macroevolutionary dynamics of the Restionaceae, which include 340 species that are found in all vegetation types in the Cape flora and are ecologically dominant in fynbos. Using an almost complete (i.e., 98%) species-level time calibrated phylogeny and models of diversification dynamics, we show that species diversification is constant through the Cenozoic, with no evidence of an acceleration with the onset of the modern winter-wet climate, or a recent density-dependent slowdown. Contrary to expectation, species inhabiting the oldest (montane) and most extensive (drylands) habitats did not undergo higher diversification rates than species in the younger (lowlands) and more restricted (wetland) habitats. We show that the rate of habitat transitions is more closely related to the speciation rate than to time, and that more than a quarter of all speciation events are associated with habitat transitions. This suggests that the unbounded Restionaceae diversification resulted from numerous, parallel, habitat shifts, rather than persistence in a habitat stimulating speciation. We speculate that this could be one of the mechanisms resulting in the hyperdiverse Cape flora.
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Affiliation(s)
- Yanis Bouchenak-Khelladi
- Department of Systematic and Evolutionary Botany, University of Zurich, CH 8008 Zurich, Switzerland
| | - H Peter Linder
- Department of Systematic and Evolutionary Botany, University of Zurich, CH 8008 Zurich, Switzerland
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Pallarés S, Arribas P, Bilton DT, Millán A, Velasco J, Ribera I. The chicken or the egg? Adaptation to desiccation and salinity tolerance in a lineage of water beetles. Mol Ecol 2017; 26:5614-5628. [PMID: 28833872 DOI: 10.1111/mec.14334] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [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: 03/16/2017] [Accepted: 07/31/2017] [Indexed: 12/24/2022]
Abstract
Transitions from fresh to saline habitats are restricted to a handful of insect lineages, as the colonization of saline waters requires specialized mechanisms to deal with osmotic stress. Previous studies have suggested that tolerance to salinity and desiccation could be mechanistically and evolutionarily linked, but the temporal sequence of these adaptations is not well established for individual lineages. We combined molecular, physiological and ecological data to explore the evolution of desiccation resistance, hyporegulation ability (i.e., the ability to osmoregulate in hyperosmotic media) and habitat transitions in the water beetle genus Enochrus subgenus Lumetus (Hydrophilidae). We tested whether enhanced desiccation resistance evolved before increases in hyporegulation ability or vice versa, or whether the two mechanisms evolved in parallel. The most recent ancestor of Lumetus was inferred to have high desiccation resistance and moderate hyporegulation ability. There were repeated shifts between habitats with differing levels of salinity in the radiation of the group, those to the most saline habitats generally occurring more rapidly than those to less saline ones. Significant and accelerated changes in hyporegulation ability evolved in parallel with smaller and more progressive increases in desiccation resistance across the phylogeny, associated with the colonization of meso- and hypersaline waters during global aridification events. All species with high hyporegulation ability were also desiccation-resistant, but not vice versa. Overall, results are consistent with the hypothesis that desiccation resistance mechanisms evolved first and provided the physiological basis for the development of hyporegulation ability, allowing these insects to colonize and diversify across meso- and hypersaline habitats.
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Affiliation(s)
- Susana Pallarés
- Department of Ecology and Hydrology, Facultad de Biología, University of Murcia, Murcia, Spain
| | - Paula Arribas
- Island Ecology and Evolution Research Group, IPNA-CSIC, Santa Cruz de Tenerife, Spain
| | - David T Bilton
- Marine Biology and Ecology Research Centre, School of Biological and Marine Sciences, Plymouth University, Plymouth, UK
| | - Andrés Millán
- Department of Ecology and Hydrology, Facultad de Biología, University of Murcia, Murcia, Spain
| | - Josefa Velasco
- Department of Ecology and Hydrology, Facultad de Biología, University of Murcia, Murcia, Spain
| | - Ignacio Ribera
- Institute of Evolutionary Biology (CSIC-Universitat Pompeu Fabra), Barcelona, Spain
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Bloom DD, Lovejoy NR. The evolutionary origins of diadromy inferred from a time-calibrated phylogeny for Clupeiformes (herring and allies). Proc Biol Sci 2014; 281:20132081. [PMID: 24430843 DOI: 10.1098/rspb.2013.2081] [Citation(s) in RCA: 51] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
One of the most remarkable types of migration found in animals is diadromy, a life-history behaviour in which individuals move between oceans and freshwater habitats for feeding and reproduction. Diadromous fishes include iconic species such as salmon, eels and shad, and have long fascinated biologists because they undergo extraordinary physiological and behavioural modifications to survive in very different habitats. However, the evolutionary origins of diadromy remain poorly understood. Here, we examine the widely accepted productivity hypothesis, which states that differences in productivity between marine and freshwater biomes determine the origins of the different modes of diadromy. Specifically, the productivity hypothesis predicts that anadromous lineages should evolve in temperate areas from freshwater ancestors and catadromous lineages should evolve in tropical areas from marine ancestors. To test this, we generated a time-calibrated phylogeny for Clupeiformes (herrings, anchovies, sardines and allies), an ecologically and economically important group that includes high diversity of diadromous species. Our results do not support the productivity hypothesis. Instead we find that the different modes of diadromy do not have predictable ancestry based on latitude, and that predation, competition and geological history may be at least as important as productivity in determining the origins of diadromy.
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Affiliation(s)
- Devin D Bloom
- Department of Biological Sciences, University of Toronto Scarborough, , Toronto, Ontario, Canada , M1C 1A4, Department of Ecology and Evolutionary Biology, University of Toronto, , Toronto, Canada
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