Population demography maintains biogeographic boundaries

Global biodiversity is organized into biogeographic regions that comprise distinct biotas. The contemporary factors maintaining differences in species composition between biogeographic regions are poorly understood. Given the evidence that populations with sufficient genetic variation can adapt to fill new habitats, it is surprising that we do not see more homogenization of species assemblages among regions. Theory suggests that the expansion of populations across biogeographic transition zones could be limited by environmental gradients that affect population demography in ways that could limit adaptive capacity, but this has not been empirically explored. Using three independently curated data sets describing continental patterns of mammalian demography and population genetics, we show that populations closer to biogeographic transition zones have lower effective population sizes and genetic diversity, and are more genetically differentiated. These patterns are consistent with reduced adaptive capacity near biogeographic transition zones. The consistency of these patterns across mammalian species suggests they are stable, predictable, and generalizable in their contribution to long-term limits on expansion and homogenization of biodiversity across biogeographic transition zones. Understanding the contemporary processes acting on populations that maintain differences in the composition of regional biotas is crucial for our basic understanding of the current and future organization of global biodiversity. The importance of contemporary, population-level processes on the maintenance of global biogeographic regions suggests that biogeographic boundaries are susceptible to environmental perturbation associated with human-caused global change.

Burial Environment Drives Seed Mortality of Kochia (Bassia scoparia), Wild Oat (Avena fatua), and Volunteer Canola (Brassica napus) Irrespective of Crop Species

Models of weed population demography are critical to understanding the long-term viability of management strategies. The driving factors of weed seedbank persistence are often underrepresented in demographic models due to the cumbersome nature of seedbank research. Simplification of weed seedbank dynamics may induce substantial error in model simulations. A soil bioassay was conducted to determine whether growth of different crop species, including wheat (Triticum aestivum L.), canola (Brassica napus L.), and field pea (Pisum sativum L.), differentially impact seed mortality of kochia [Bassia scoparia (L.) A.J. Scott], wild oat (Avena fatua L.), and volunteer canola in seven burial environments in western Canada. Weed seed survival after the 7 week burial period varied widely among burial environments (from 8% to 88% when averaged among weed and crop species), whereas growth of the different crop species had negligible impact on seedbank persistence. Among environments, wild oat seed survived the greatest (79%), followed by kochia (20%), and volunteer canola (6%). Weed seed survival was associated with soil physical properties (texture) and seed microsite characteristics (temperature), but not crop species or soil chemical properties. Overall, these data support the need for greater integration of soil and environmental parameters into models of weed population demography.

De novo genome assembly of the marine teleost, Bluefin Trevally (Caranx melampygus)

The bluefin trevally, Caranx melampygus, also known as the bluefin kingfish or bluefin jack, is known for its remarkable, bright-blue fins. This marine teleost is a widely-prized sportfish, but few resources have been devoted to the genomics and conservation of this species because it is not targeted by large-scale commercial fisheries. Population declines from recreational and artisanal overfishing have been observed in Hawai‘i, USA, resulting in both an interest in aquaculture and concerns about the long-term conservation of this species. Most research to-date has been performed in Hawai‘i, raising questions about the status of bluefin trevally populations across its Indo-Pacific range. Genomic resources allow for expanded research on stock status, genetic diversity, and population demography. We present a high-quality, 711Mbp nuclear genome assembly of a Hawaiian bluefin trevally from noisy long-reads with a contig NG50 of 1.2Mbp and longest contig length of 8.9Mbp. As measured by single-copy orthologs, the assembly was 95% complete, and the genome is comprised of 16.9% repetitive elements. The assembly was annotated with 33.1K protein-coding genes, 71.4% of which were assigned putative functions, using RNA-seq data from eight tissues from the same individual. This is the first whole-genome assembly published for the carangoid genus Caranx. Using this assembled genome, a multiple sequentially Markovian coalescent model was implemented to assess population demography. Estimates of effective population size suggest population expansion has occurred since the Late Pleistocene. This genome will be a valuable resource for comparative phylogenomic studies of carangoid fishes and will help elucidate demographic history and delineate stock structure for bluefin trevally populations throughout the Indo-Pacific.

Environmental and Management Effects on Demographic Processes in the U.S. Threatened Platanthera leucophaea (Nutt.) Lindl. (Orchidaceae)

Populations of the U.S. threatened orchid, Platanthera leucophaea, are restricted to fragmented grassland and wetland habitats. We address the long-term (1998–2020) interactive effects of habitat (upland prairie vs. wetland), fire management (burned vs. unburned) and climatic variation, as well as pollination crossing effects, on population demography in 42 populations. Our analysis revealed the consistent interactive effects of habitat, dormant season burning, and climatic variation on flowering, reproduction, and survival. Burning increased flowering and population size under normal or greater than normal precipitation but may have a negative effect during drought years apparently if soil moisture stress reduces flowering and increases mortality. Trends in the number of flowering plants in populations also correspond to precipitation cycles. As with flowering and fecundity, survival is significantly affected by the interactive effects of habitat, fire, and climate. This study supports previous studies finding that P. leucophaea relies on a facultative outcrossing breeding system. Demographic modeling indicated that fire, normal precipitation, and outcrossing yielded greater population growth, and that greater fire frequency increased population persistence. It also revealed an ecologically driven demographic switch, with wetlands more dependent upon survivorship than fecundity, and uplands more dependent on fecundity than survivorship. Our results facilitate an understanding of environmental and management effects on the population demography of P. leucophaea in the prairie region of its distribution. Parallel studies are needed in the other habitats such as wetlands, especially in the eastern part of the range of the species, to provide a more complete picture.