The Genome of the Ctenophore Mnemiopsis leidyi and Its Implications for Cell Type Evolution

…, RT Moreland, DK Simmons, BJ Koch, WR Francis… - Science, 2013 - science.org
Introduction An understanding of ctenophore biology is critical for reconstructing events that
occurred early in animal evolution. The phylogenetic relationship of ctenophores (comb …

The last common ancestor of animals lacked the HIF pathway and respired in low-oxygen environments

DB Mills, WR Francis, S Vargas, M Larsen… - Elife, 2018 - elifesciences.org
10.7554/eLife.31176.001 Animals have a carefully orchestrated relationship with oxygen.
When exposed to low environmental oxygen concentrations, and during periods of increased …

The genome of the contractile demosponge Tethya wilhelma and the evolution of metazoan neural signalling pathways

WR Francis, M Eitel, S Vargas, M Adamski… - BioRxiv, 2017 - biorxiv.org
Porifera are a diverse animal phylum with species performing important ecological roles in
aquatic ecosystems, and have become models for multicellularity and early-animal evolution. …

Similar ratios of introns to intergenic sequence across animal genomes

WR Francis, G Wörheide - Genome biology and evolution, 2017 - academic.oup.com
One central goal of genome biology is to understand how the usage of the genome differs
between organisms. Our knowledge of genome composition, needed for downstream …

Profiling cellular diversity in sponges informs animal cell type and nervous system evolution

…, K Achim, NL Schieber, L Pan, F Ruperti, WR Francis… - Science, 2021 - science.org
The evolutionary origin of metazoan cell types such as neurons and muscles is not known.
Using whole-body single-cell RNA sequencing in a sponge, an animal without nervous …

[HTML][HTML] Tracing animal genomic evolution with the chromosomal-level assembly of the freshwater sponge Ephydatia muelleri

NJ Kenny, WR Francis, RE Rivera-Vicéns… - Nature …, 2020 - nature.com
The genomes of non-bilaterian metazoans are key to understanding the molecular basis of
early animal evolution. However, a full comprehension of how animal-specific traits, such as …

[HTML][HTML] A comparison across non-model animals suggests an optimal sequencing depth for de novotranscriptome assembly

WR Francis, LM Christianson, R Kiko, ML Powers… - BMC genomics, 2013 - Springer
Background The lack of genomic resources can present challenges for studies of non-model
organisms. Transcriptome sequencing offers an attractive method to gather information …

[HTML][HTML] Comparative genomics and the nature of placozoan species

M Eitel, WR Francis, F Varoqueaux, J Daraspe… - PLoS …, 2018 - journals.plos.org
Placozoans are a phylum of nonbilaterian marine animals currently represented by a single
described species, Trichoplax adhaerens, Schulze 1883. Placozoans arguably show the …

Predicted microbial secretomes and their target substrates in marine sediment

WD Orsi, TA Richards, WR Francis - Nature microbiology, 2018 - nature.com
Scientific drilling has identified a biosphere in marine sediments 1 , which contain many
uncultivated microbial groups known only by their DNA sequences 2 , 3 – 4 . Recycling of …

The role of homology and orthology in the phylogenomic analysis of metazoan gene content

…, M Adamski, M Adamska, WR Francis… - Molecular biology …, 2019 - academic.oup.com
Resolving the relationships of animals (Metazoa) is crucial to our understanding of the origin
of key traits such as muscles, guts, and nerves. However, a broadly accepted metazoan …