Category Archives: RNAseq

RNA data ruins a tempting just-so story of mutualism between algae and salamanders

Most relationships between animals and microbes interface in one of two locations: on the outside of animal cells (mostly to the benefit of both parties, think gut microbiota) or on the inside of animal cells (mostly to the benefit of … Continue reading

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The largest mammalian genome is not polyploid

Some 40 million years ago in South America, following the arrival of the common ancestor of caviomorph rodents from the Old World, big changes were afoot. Specifically, the caviomorph colonists were beginning to give rise to an extant evolutionary progeny … Continue reading

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On hyRAD-X, another option for museum genomics

Last year, I profiled Suchan et al.’s “hyRAD” method for reduced-representation genome sequencing of degraded sources of DNA using RAD probes. While it’s too early to say whether hyRAD will be widely used by molecular ecologists looking to integrate historic … Continue reading

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Posted in genomics, methods, natural history, next generation sequencing, phylogenetics, phylogeography, population genetics, RNAseq, selection, transcriptomics | Tagged , , , | Leave a comment

You can call her queen bee: the role of epigenetics in honeybee development

Insects have social lifestyles that are often organized in castes. Within the insect community, different individuals specialize, each having a unique role. This efficient method of doling out the workload, ultimately, is believed to be why social insect lifestyles are … Continue reading

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Posted in genomics, haploid-diploid, Molecular Ecology, the journal, next generation sequencing, RNAseq | Tagged , , | Leave a comment

Right reads, wrong index? Concerns with data from Illumina’s HiSeq 4000

Commanding around a 70% share of a 1.3 billion USD market, Illumina is the major player in next-generation sequencing (NGS) technology. More likely than not, if you’re a molecular ecologist working with NGS data, you’ve run your samples on a … Continue reading

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Posted in genomics, next generation sequencing, RNAseq, technical, transcriptomics | Tagged , , , , | 5 Comments

Small Molecules, Big Differences

Mary Latimer wrote this post as a final project for Stacy Krueger-Hadfield’s Science Communication course at the University of Alabama at Birmingham. She is a third year PhD student at UAB studying miRNAs and methionine restriction. Her hobbies include cats, netflix, … Continue reading

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When the going gets hot the dinoflagellates (sometimes) get going, how viruses might affect coral symbionts

Corals represent more than meets the eye, they host intricate and interesting communities composed of dinoflagellates (also referred to as zooxanthellae), and a suite of microbes that include bacteria, archaea, fungi, protists, and viruses. One such dinoflagellate that often shares … Continue reading

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Posted in community ecology, microbiology, next generation sequencing, RNAseq, transcriptomics | Tagged , , | Leave a comment