The mosses of sub-Saharan Africa : 2., endemism and biodiversity

Based on a recent moss checklist of sub-Saharan Africa, an analysis is made of moss diversity and endemism in the area. There are over 3000 taxa, 77% of which are endemic. Figures for diversity and endemism for each country are listed, mapped and graphed, and endemism is also considered at the genus level. As the bryophyte flora of Africa is comparatively poorly known, it is important to be prudent when drawing conclusions about biodiversity and endemism

CHARACTER ASSESSMENT, GENUS LEVEL BOUNDARIES, AND PHYLOGENETIC ANALYSES OF THE FAMILY RHACOPHORIDAE:: A REVIEW AND PRESENT DAY STATUS

The first comprehensive phylogenetic analysis of the family Rhacophoridae was conducted by Liem (1970) scoring 81 species for 36 morphological characters. Channing (1989), in a reanalysis of Liem’s study, produced a phylogenetic hypothesis different from that of Liem. We compared the two studies and produced a third phylogenetic hypothesis based on the same characters. We also present the synapomorphic characters from Liem that define the major clades and each genus within the family. Finally, we summarize intergeneric relationships within the family as hypothesized by other studies, and the family’s current status as it relates to other ranoid families

Phytoplankton Community Structure in Dardanelle Reservoir, Arkansas, 1975-1982

Phytoplankton data were collected with standard equipment and procedures over an eight-year period (1975-1982) in Dardanelle Reservoir, Arkansas. Community abundance and diversity at the genus level are described. Sixty-five genera representing 35 families and five divisions were identified. Total phytoplankton abundance and diversity were quite uniform among the stations but fluctuated considerably with time. These fluctuations did not correspond clearly with season. Dominant taxa were seasonal, though, with diatoms being usually dominant in January, April and October, and blue-greens dominant in July. The phytoplankton community structure has not been significantly altered by the operation of ANO Unit I

New records and observations of macroalgae and associated pathogens from the Falkland Islands, Patagonia and Tierra del Fuego

Subantarctic and Antarctic regions remain little explored with regards to their seaweed diversity. This study is based upon collections in the early 1970s and 2007–2013. It is supported by sequencing COI (mitochondrial cytochrome oxidase I) and reports new records for four species of brown algae Hincksia granulosa, Hincksia sandriana, Myriotrichia clavaeformis, Syringoderma australe), four red algae (Erythrotrichia carnea, Paraglossum salicifolium, Phycodrys antarctica, Plumariopsis eatonii), one green alga (Chaetomorpha aerea) and of the oomycete Anisolpidium ectocarpii. A further four brown algae are reported at genus level and discussed (Cladostephus sp., Colpomenia sp., Dictyota sp., Punctaria sp.). Observations of the biology of three brown algal taxa (Cladothele decaisnei, Geminocarpus geminatus, Halopteris obovata) from the region are also reported here

Species Identification and Profiling of Complex Microbial Communities Using Shotgun Illumina Sequencing of 16S rRNA Amplicon Sequences

The high throughput and cost-effectiveness afforded by short-read sequencing technologies, in principle, enable researchers to perform 16S rRNA profiling of complex microbial communities at unprecedented depth and resolution. Existing Illumina sequencing protocols are, however, limited by the fraction of the 16S rRNA gene that is interrogated and therefore limit the resolution and quality of the profiling. To address this, we present the design of a novel protocol for shotgun Illumina sequencing of the bacterial 16S rRNA gene, optimized to capture more than 90% of sequences in the Greengenes database and with nearly twice the resolution of existing protocols. Using several in silico and experimental datasets, we demonstrate that despite the presence of multiple variable and conserved regions, the resulting shotgun sequences can be used to accurately quantify the diversity of complex microbial communities. The reconstruction of a significant fraction of the 16S rRNA gene also enabled high precision (>90%) in species-level identification thereby opening up potential application of this approach for clinical microbial characterization.Comment: 17 pages, 2 tables, 2 figures, supplementary materia

Ingestion of Milk Containing Very Low Concentration of Antimicrobials: Longitudinal Effect on Fecal Microbiota Composition in Preweaned Calves.

Although antimicrobial drugs are central to combat disease in modern medicine, the use of these drugs can have undesired consequences for human and animal health. One consequence is the post-therapy excretion of pharmacological agents, such as the elimination of drug residues at very low concentrations in the milk of lactating mammals. Limited information is currently available on the impact from the exposure of the gut microbiota to drug residues using in vivo natural models. The objective of our study was to address this knowledge gap and evaluate the effect on the fecal microbiota composition from feeding preweaned dairy calves raw milk with residual concentrations of ampicillin, ceftiofur, penicillin, and oxytetracycline from birth to weaning. At birth, thirty calves were randomly assigned to a controlled feeding trial where: 15 calves were fed raw milk with no drug residues (NR), and 15 calves were fed raw milk with drug residues (DR) by adding ceftiofur, penicillin, ampicillin, and oxytetracycline at final concentrations in the milk of 0.1, 0.005, 0.01, and 0.3 μg/ml, respectively. Fecal samples were rectally collected from each calf once a week starting at birth, prior to the first feeding in the trial (pre-treatment), until 6 weeks of age. Sequencing of the microbial 16S rRNA genes was conducted using the Illumina MiSeq, which provides a high resolution of the microbiota down to the genus level. Discriminant analysis showed that, except for pre-treatment samples, calves fed milk with drug residues and calves fed milk without drug residues easily discriminated at the genus level on their weekly microbial profile. However, analysis comparing the abundance of taxon between NR and DR showed significant differences only at the genus levels, and not at the phylum, class, order or family levels. These results suggest that although drug residues can result in clear discriminate gut microbial communities, they do not result in disruption of taxonomic levels above the genus