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Borgan, O.

Publications and source records attributed to Borgan, O..

2 recordsLinked to original sources

Study mortality with hazard rates, not probabilities

O_LIMortality is a key process in ecology and evolution, and much effort is spent on statistical and theoretical modelling of this process. Mortality hazard rates describe individuals instantaneous ability to survive at different times, whereas survival probabilities are defined for time-intervals of a given length. In this commentary, we argue that it is often more meaningful to model and interpret interval-specific time-averaged mortality hazard rates than survival probabilities, also when using discrete-time models.\nC_LIO_LIWe discuss three topics where the concept of hazard rates is essential for sound biological inference, but nevertheless often not used: (i) modelling of covariate effects on survival probabilities or mortality hazard rates, (ii) modelling of multiple sources of mortality and competing risks, and (iii) elasticity analyses of population growth rate to demographic parameters. To facilitate estimation of cause-specific mortality hazard rates, we provide amendments to R package marked.\nC_LIO_LIBy focusing on modelling mortality hazard rates, one avoids several inherent problems of comparing survival or mortality probabilities. In particular, interpretations about relative differences between mortality hazard rates (measurements on a ratio scale), or effects of relative changes in mortality hazard rates on population growth (elasticities), are more meaningful than similar interpretations involving survival (or mortality) probabilities or odds (measurements on an absolute scale).\nC_LIO_LIThe concept of hazard rates is essential for understanding ecological and evolutionary processes and we give an intuitive explanation for this, using several examples. We provide some practical guidelines and suggestions for further methods developments.\nC_LI

ecology

A single Vibrionales 16S rRNA oligotype dominates the intestinal microbiome in two geographically separated Atlantic cod populations

BackgroundHost-microbe interactions are particularly intriguing in Atlantic cod (Gadus morhua), as it lacks the MHC II complex involved in presentation of extracellular pathogens. Nonetheless, little is known about the diversity of its microbiome in natural populations. Here, we use 16S rRNA high-throughput sequencing to investigate the microbial community composition in gut content and mucosa of 22 adult individuals from two coastal populations in Norway, located 470 km apart.\n\nResultsWe identify a core microbiome of 23 OTUs (97% sequence similarity) in all individuals that comprises 93% of the total number of reads. The most abundant orders are classified as Vibrionales, Fusobacteriales, Clostridiales and Bacteroidales. While mucosal samples show significantly lower diversity than gut content samples, no differences in OTU community composition are observed between the two populations. The differential abundance of oligotypes within two common OTUs does reveal limited spatial segregation. Remarkably, the most abundant OTU consists of a single oligotype (order Vibrionales, genus Photobacterium) that represents nearly 50% of the reads in both locations.\n\nConclusionsOur results show that the intestinal bacterial community of two geographically separated coastal populations of Atlantic cod is dominated by a limited number of highly abundant 16S rRNA oligotypes shared by all specimens examined. The ubiquity of these oligotypes suggests that the northern coastal Atlantic cod gut microbiome is colonized by a limited number of species with excellent dispersal capabilities that are well suited to thrive in their host environment.

microbiology