next generation sequencing

Accurate determination of animal diets is difficult. Methods such as molecular barcoding or metagenomics offer a promising approach allowing quantitative and sensitive detection of different taxa. Here we show that rapid and inexpensive quantification of animal, plant, and fungal content from stomach contents is possible through metagenomic sequencing with the portable Oxford Nanopore Technologies (ONT) MinION. Using an amplification-free approach, we profile the stomach contents from 24 wild-caught rats.

Studies of wildlife populations have identified associations between disease resistance and diversity at genes of the major histocompatibility complex (MHC), which are involved with adaptive immunity. We compare MHC class II B (MHCIIB) and microsatellite genetic diversity in a population of New Zealand passerine birds, North Island saddlebacks on Mokoia Island, that was also tested for avian malaria.