Drivers of Population Structure of the Bottlenose Dolphin (Tursiops truncatus) in the Eastern Mediterranean Sea

Evolutionary Biology - The drivers of population differentiation in oceanic high dispersal organisms, have been crucial for research in evolutionary biology. Adaptation to different environments is...     

SCRAPP: A tool to assess the diversity of microbial samples from phylogenetic placements

Microbial ecology research is currently driven by the continuously decreasing cost of DNA sequencing and the improving accuracy of data analysis methods. One such analysis method is phylogenetic placement, which establishes the phylogenetic identity of the anonymous environmental sequences in a sample by means of a given phylogenetic reference tree. However, assessing the diversity of a sample remains challenging, as traditional methods do not scale well with the increasing data volumes and/or do not leverage the phylogenetic placement information. Here, we present scrapp , a highly parallel and scalable tool that uses a molecular species delimitation algorithm to quantify the diversity distribution over the reference phylogeny for a given phylogenetic placement of the sample. scrapp employs a novel approach to cluster phylogenetic placements, called placement space clustering, to efficiently perform dimensionality reduction, so as to scale on large data volumes. Furthermore, it uses the phylogeny‐aware molecular species delimitation method mPTP to quantify diversity. We evaluated scrapp using both, simulated and empirical data sets. We use simulated data to verify our approach. Tests on an empirical data set show that scrapp ‐derived metrics can classify samples by their diversity‐correlated features equally well or better than existing, commonly used approaches. scrapp is available at https://github.com/pbdas/scrapp .     

Does fragmented river connectivity alter the reproductive behavior of the potamodromous fish Alburnus vistonicus?

Blocked riverine spawning migration routes constitute one of the main threats of potamodromous fish that require well-connected habitats of high quality to maintain their unique life-history form. Alburnus vistonicus, a potamodromous species inhabiting the Vistonis freshwater system in northern Greece, manages to cope with wide salinity fluctuations in Vistonis Lake, but the impact of the fragmented connectivity of the lake’s two main freshwater suppliers, Kosynthos and Kompsatos rivers, has not been assessed. We analyzed the species whole reproductive cycle and we divided it into phases. Cyclicity was observed in gonadosomatic index and oocyte diameter, while total fecundity remained constant prior to the onset of the spawning season. Stomach fullness and condition factor differed among the surveyed habitats. Successful spawning and multiple spawning were verified, as well as spawning migration and potamodromy. However, mature females with markers of recent spawning activity were captured also in the lake, suggesting spawning occurrence in the lake or a previously undocumented oscillatory behavior between the lake and the rivers during the spawning season and between sequential spawning events. Either behavior may serve as a mechanism to overcome the restricted spawning migration routes due to the fragmented river connectivity.

     

Interactions of angiotensin II with membranes using a combination of differential scanning calorimetry and 31P NMR spectroscopy

Summary This study of angiotensin II (ANG II) membrane interactions uses a combination of³¹P NMR spectroscopy and differential scanning calorimetry (DSC), two valuable and complementary techniques which can provide useful information about the thermotropic and dynamic properties of peptide hormones in membranes. The major conclusion from the calorimetric experiments is that ANG II affects the phase properties of hydrated dipalmitoyl-phosphatidylcholine (DPPC) bilayers by mainly broadening the pretransition area. Preliminary³¹P NMR data seem to confirm the DSC results by showing that ANG II produces a lowering of the pretransition temperature but affects only minimally the main phase transition. In combination, the results from the two methods may indicate that the hormone produces its effects on the phospholipid head groups while its effects on the bilayer alkyl chains are not significant. Such results can be interpreted to mean that ANG II closely interacts with the phospholipid head groups perhaps up to the level of the interface, but does not enter deeper into the membrane bilayer.     

Reproduction is adapted to survival characteristics across geographically isolated medfly populations

We propose the hypothesis that individual longitudinal trajectories of fertility are closely coupled to varying survival schedules across geographically isolated populations of the same species, in such a way that peak reproduction takes place before substantial increases in mortality are observed. This reproductive adaptation hypothesis is investigated for medflies through a statistical analysis of biodemographic data that were obtained for female medflies from six geographically far apart regions. The following results support the hypothesis: (i) both survival and reproductive schedules differ substantially between these populations, where early peaks and subsequently fast declining reproduction are observed for short-lived and protracted reproductive schedules for long-lived flies; (ii) when statistically adjusting reproduction for the observed differences in survival, the differences in reproductive schedules largely vanish, and thus the observed differences in fertility across the populations can be explained by differences in population-specific longevity; and (iii) specific survival patterns of the medflies belonging to a specific population predict the individual reproductive schedule for the flies in this population. The analysis is based on innovative statistical tools from functional data analysis. Our findings are consistent with an adaptive mechanism whereby trajectories of fertility evolve in response to specific constraints inherent in the population survival schedules.     

Chirospecific syntheses of 2H- and 13C-labeled 1-O-alkyl-2-O-alkyl'-sn-glycero-3-phosphoethanolamines and 1-O-alkyl-2-O-alkyl'-sn-glycero-3-phosphocholines

A convenient sequence for the synthesis of 1-O-alkyl-2-O-alkyl'-sn-glycero-3-phospholipids was demonstrated starting from 2,3-O-isopropylidene-sn-glycerol, which was first alkylated with 1-bromohexadecane, then converted to the corresponding benzylidene analog. Other less convenient methods to prepare 2,3-O-benzylidene-1-O-hexadecyl-sn-glycerol were also investigated. The key step in the synthesis was the reduction of 2,3-O-benzylidene-1-O-hexadecyl-sn-glycerol with lithium aluminum hydride-aluminum chloride to give 3-O-benzyl-1-O-hexadecyl-sn-glycerol as the major product in 79% yield. The syntheses of 1-O-hexadecyl-2-O-hexadecyl-(1',1'-d2,-sn-glycero-3-phosphoethanolamine and 1-O-hexadecyl-2-O-hexadecyl-(1'-13C)-sn-glycero-3-phosphoethanolamine as well as the correspondingly labeled sn-glycero-3-phosphocholine analogs were then performed. The optical purities of the synthetic intermediates and the ether lipids were established by a novel 1H-NMR method.