The status of alien bamboos in South Africa

CITATION: Canavan, S. et al. 2021. The status of alien bamboos in South Africa. South African Journal of Botany, 138:33-40. doi:10.1016/j.sajb.2020.11.027.The original publication is available at https://www.sciencedirect.com/journal/south-african-journal-of-botanyThe growing interest in commercial cultivation of bamboos (Poaceae subfamily Bambusoideae) has led to the introduction of new alien species into South Africa. The rate at which bamboos are being planted in South Africa is a cause for concern because of the impacts of bamboo invasions in other parts of the world. To understand the risks associated with new introductions and new plantings, we assess the outcomes of past introductions of bamboos into South Africa. To this end we: (1) produce an inventory of alien bamboo taxa; (2) assess the distribution of bamboos; (3) determine the rate of spread of bamboo at a site with a high density of naturalised stands; and (4) evaluate the current regulatory status of alien bamboos in South Africa. We used a combination of expert opinion, literature, historical records of populations, and public participation to produce a species list and locate populations of alien bamboos. We also attempted to confirm species identities using DNA barcoding. We found that 28 currently-accepted species of bamboo have been recorded in South Africa. However, we have little confidence in this estimate, as 20 of the species could not be confirmed or identified as present in the country. Bamboos are an inherently challenging group to identify using vegetative material, and DNA barcoding was inconclusive. The distribution of bamboos across the country varied with the type or lineage (e.g. herbaceous, tropical or temperate) and the source of information (e.g. herbarium records, in-field observation or public contribution). Although alien bamboos are naturalised at several sites, we found no large invasive stands nor evidence of widespread negative environmental impacts. Nonetheless, we recommend caution regarding future introductions of bamboos for commercial cultivation, as the nature of the plantings will likely differ from the historical situation in both the location, configuration, and the scale of cultivation, and as new species are likely to be introduced. We propose several changes to the current listing of bamboo taxa in national legislation pertaining to alien and invasive species.https://www.sciencedirect.com/science/article/pii/S0254629920311868?via%3DihubPublisher’s versio

Evolutionary relationships in Panicoid grasses based on plastome phylogenomics (Panicoideae; Poaceae)

Background: Panicoideae are the second largest subfamily in Poaceae (grass family), with 212 genera and approximately 3316 species. Previous studies have begun to reveal relationships within the subfamily, but largely lack resolution and/or robust support for certain tribal and subtribal groups. This study aims to resolve these relationships, as well as characterize a putative mitochondrial insert in one linage. Results: 35 newly sequenced Panicoideae plastomes were combined in a phylogenomic study with 37 other species: 15 Panicoideae and 22 from outgroups. A robust Panicoideae topology largely congruent with previous studies was obtained, but with some incongruences with previously reported subtribal relationships. A mitochondrial DNA (mtDNA) to plastid DNA (ptDNA) transfer was discovered in the Paspalum lineage. Conclusions: The phylogenomic analysis returned a topology that largely supports previous studies. Five previously recognized subtribes appear on the topology to be non-monophyletic. Additionally, evidence for mtDNA to ptDNA transfer was identified in both Paspalum fimbriatum and P. dilatatum, and suggests a single rare event that took place in a common progenitor. Finally, the framework from this study can guide larger whole plastome sampling to discern the relationships in Cyperochloeae, Steyermarkochloeae, Gynerieae, and other incertae sedis taxa that are weakly supported or unresolved.Fil: Burke, Sean V.. Northern Illinois University; Estados UnidosFil: Wysocki, William P.. Northern Illinois University; Estados UnidosFil: Zuloaga, Fernando Omar. Consejo Nacional de Investigaciones Científicas y Técnicas. Instituto de Botánica Darwinion. Academia Nacional de Ciencias Exactas, Físicas y Naturales. Instituto de Botánica Darwinion; ArgentinaFil: Craine, Joseph M.. Jonah Ventures; Estados UnidosFil: Pires, J. Chris. University of Missouri; Estados UnidosFil: Edger, Patrick P.. Michigan State University; Estados UnidosFil: Mayfield Jones, Dustin. Donald Danforth Plant Science Center; Estados UnidosFil: Clark, Lynn G.. Iowa State University; Estados UnidosFil: Kelchner, Scot A.. University of Idaho; Estados UnidosFil: Duvall, Melvin R.. Northern Illinois University; Estados Unido

Resolving deep relationships of PACMAD grasses: a phylogenomic approach

Background Plastome sequences for 18 species of the PACMAD grasses (subfamilies Panicoideae, Aristidoideae, Chloridoideae, Micrairoideae, Arundinoideae, Danthonioideae) were analyzed phylogenomically. Next generation sequencing methods were used to provide complete plastome sequences for 12 species. Sanger sequencing was performed to determine the plastome of one species, Hakonechloa macra, to provide a reference for annotation. These analyses were conducted to resolve deep subfamilial relationships within the clade. Divergence estimates were assessed to determine potential factors that led to the rapid radiation of this lineage and its dominance of warmer open habitats. Results New plastomes were completely sequenced and characterized for 13 PACMAD species. An autapomorphic ~1140 bp deletion was found in Hakonechloa macra putatively pseudogenizing rpl14 and eliminating rpl16 from this plastome. Phylogenomic analyses support Panicoideae as the sister group to the ACMAD clade. Complete plastome sequences provide greater support at deep nodes within the PACMAD clade. The initial diversification of PACMAD subfamilies was estimated to occur at 32.4 mya. Conclusions Phylogenomic analyses of complete plastomes provides resolution for deep relationships of PACMAD grasses. The divergence estimate of 32.4 mya at the crown node of the PACMAD clade coincides with the Eocene-Oligocene Transition (EOT). The Eocene was a period of global cooling and drying, which led to forest fragmentation and the expansion of open habitats now dominated by these grasses. Understanding how these grasses are related and determining a cause for their rapid radiation allows for future predictions of grassland distribution in the face of a changing global climate.This work was supported in part by the Plant Molecular Biology Center, the Department of Biological Sciences at Northern Illinois University and the National Science Foundation under Grant Numbers DEB-1120750 to LGC, DEB-1120856 to SAK and DEB-1120761 to MRD.This article is made openly accessible in part by an award from the Northern Illinois University Libraries’ Open Access Publishing Fund

Networks: expanding evolutionary thinking.

Networks allow the investigation of evolutionary relationships that do not fit a tree model. They are becoming a leading tool for describing the evolutionary relationships between organisms, given the comparative complexities among genomes. © 2013 Elsevier Ltd