• Resolving relationships in an exceedingly young Neotropical orchid lineage using Genotyping-by-sequencing data

      Pérez-Escobar, Oscar Alejandro; Bogarin, Diego; Schley, Rowan; Bateman, Richard M.; Gerlach, Günter; Harpke, Dörte; Brassac, Jonathan; Fernández-Mazuecos, Mario; Dodsworth, Steven; Hagsater, Eric; et al. (Elsevier, 2019-11-14)
      Poor morphological and molecular differentiation in recently diversified lineages is a widespread phenomenon in plants. Phylogenetic relationships within such species complexes are often difficult to resolve because of the low variability in traditional molecular loci. Furthermore, biological phenomena responsible for topological incongruence such as Incomplete Lineage Sorting (ILS) and hybridisation complicate the resolution of phylogenetic relationships among closely related taxa. In this study, we employ a Genotyping-by-sequencing (GBS) approach to disentangle evolutionary relationships within a species complex belonging to the Neotropical orchid genus Cycnoches. This complex includes seven taxa distributed through Central America and the Colombian Chocó, and is nested within a clade estimated to have first diversified in the early Quaternary. Previous phylogenies inferred from few loci failed to provide support for internal relationships within the complex. Our Neighbour-net and coalescent-based analyses inferred from ca. 13,000 GBS loci obtained from 31 individuals belonging to six of the seven traditionally accepted Cycnoches taxa provided a robust phylogeny for this group. The genus Cycnoches includes three main clades that are further supported by morphological traits and geographic distributions. Similarly, a topology reconstructed through maximum likelihood (ML) inference of concatenated GBS loci produced results that are comparable with those reconstructed through coalescence and network-based methods. Our comparative phylogenetic informativeness analyses suggest that the low support evident in the ML phylogeny might be attributed to the abundance of uninformative GBS loci, which can account for up to 50% of the total number of loci recovered. The phylogenomic framework provided here, as well as morphological evidence and geographical patterns, suggest that the six entities previously thought to be different species or subspecies might actually represent only three distinct segregates. We further discuss the limited phylogenetic informativeness found in our GBS approach and its utility to disentangle relationships within recent and rapidly evolving species complexes. Our study is the first to demonstrate the utility of GBS data to reconstruct relationships within young (~2 Ma) Neotropical plant clades, opening new avenues for studies of species complexes that populate the species-rich orchid family.
    • Water use for shale gas extraction in the Sichuan Basin, China

      Wang, Jianliang; Liu, Mingming; Bentley, Yongmei; Feng, Lianyong; Zhang, Chunhua; China University of Petroleum; University of Bedfordshire; Economics & Technology Research Institute, Beijing (Elsevier, 2018-08-07)
      This study investigates the use of water for extracting shale gas in the Sichuan Basin of China. Both net water use and water intensity (i.e., water use per unit of gas produced) of shale wells are estimated by applying a process-based life cycle inventory (LCI) model. The results show that the net water use and water intensity are around 24500 m3/well and 1.9 m3 water/104m3 gas respectively, and that the fracturing and completion stage of shale gas extraction accounts for the largest share in net water use. A comparison shows that China's water use for shale gas extraction is generally higher than that of other countries. By considering the predicted annual drilling activities in the Sichuan Basin, we find that the annual water demand for shale gas development is likely to be negligible compared to total regional water supply. However, considering the water demand for shale gas extraction and the water demand from other sectors may make water availability a significant concern for China's shale gas development in the future.