Table of Contents: September 2017

Wild primates are now recognised as important reservoirs of malaria parasites that can infect humans. Diez Benavente et al. studied the macaque parasite Plasmodium knowlesi. They used a new high-quality reference genome to re-evaluate previously described subpopulations among human and macaque isolates from Malaysian-Borneo and Peninsular-Malaysia. Their analysis reveals genetic regions that have been recently exchanged between long-tailed and pig-tailed macaques, which contain genes with signals indicative of rapid contemporary ecological change, including deforestation. The image shows a long-tailed macaque (Macaca fascicularis), one of two simian hosts known to carry the zoonotic malaria parasite P. knowlesi in Malaysia. See Diez Benavente et al.

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Image Credit: Shankar S. (flickr; CC BY 2.0)


Up For A Challenge (U4C): Stimulating innovation in breast cancer genetic epidemiology

Leah E. Mechanic, Sara Lindström, Kenneth M. Daily, Solveig K. Sieberts, Christopher I. Amos, Huann-Sheng Chen, Nancy J. Cox, Marina Dathe, Eric J. Feuer, Michael J. Guertin, Joshua Hoffman, Yunxian Liu, Jason H. Moore, Chad L. Myers, Marylyn D. Ritchie, Joellen Schildkraut, Fredrick Schumacher, John S. Witte, Wen Wang, Scott M. Williams, U4C Challenge Participants, U4C Challenge Data Contributors, Elizabeth M. Gillanders

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"T-bet"-ing on autoimmunity variants

Michelle L. T. Nguyen, Dimitre R. Simeonov, Alexander Marson

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Forensic genetics and genomics: Much more than just a human affair

Miguel Arenas, Filipe Pereira, Manuela Oliveira, Nadia Pinto, Alexandra M. Lopes, Veronica Gomes, Angel Carracedo, Antonio Amorim

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Anlu Chen, Yang Liu, Scott M. Williams, Nathan Morris, David A. Buchner

Estimation of kinship coefficient in structured and admixed populations using sparse sequencing data

Jinzhuang Dou, Baoluo Sun, Xueling Sim, Jason D. Hughes, Dermot F. Reilly, E. Shyong Tai, Jianjun Liu, Chaolong Wang

Shared genetic regulatory networks for cardiovascular disease and type 2 diabetes in multiple populations of diverse ethnicities in the United States

Le Shu, Kei Hang K. Chan, Guanglin Zhang, Tianxiao Huan, Zeyneb Kurt, Yuqi Zhao, Veronica Codoni, David-Alexandre Trégouët, Cardiogenics Consortium, Jun Yang, James G. Wilson, Xi Luo, Daniel Levy, Aldons J. Lusis, Simin Liu, Xia Yang

High rate of adaptation of mammalian proteins that interact with Plasmodium and related parasites

Emily R. Ebel, Natalie Telis, Sandeep Venkataram, Dmitri A. Petrov, David Enard

The population genetics of human disease: The case of recessive, lethal mutations

Carlos Eduardo G. Amorim, Ziyue Gao, Zachary Baker, José Francisco Diesel, Yuval B. Simons, Imran S. Haque, Joseph Pickrell, Molly Przeworski

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Rescuing the aberrant sex development of H3K9 demethylase Jmjd1a-deficient mice by modulating H3K9 methylation balance

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Genome diversity of marine phages recovered from Mediterranean metagenomes: Size matters

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A two-step transport pathway allows the mother cell to nurture the developing spore in Bacillus subtilis

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Edward B. Li, Dawn Truong, Shawn A. Hallett, Kusumika Mukherjee, Brian C. Schutte, Eric C. Liao

Appraising the relevance of DNA copy number loss and gain in prostate cancer using whole genome DNA sequence data

Niedzica Camacho, Peter Van Loo, Sandra Edwards, Jonathan D. Kay, Lucy Matthews, Kerstin Haase, Jeremy Clark, Nening Dennis, Sarah Thomas, Barbara Kremeyer, Jorge Zamora, Adam P. Butler, Gunes Gundem, Sue Merson, Hayley Luxton, Steve Hawkins, Mohammed Ghori, Luke Marsden, Adam Lambert, Katalin Karaszi, Gill Pelvender, Charlie E. Massie, Zsofia Kote-Jarai, Keiran Raine, David Jones, William J. Howat, Steven Hazell, Naomi Livni, Cyril Fisher, Christopher Ogden, Pardeep Kumar, Alan Thompson, David Nicol, Erik Mayer, Tim Dudderidge, Yongwei Yu, Hongwei Zhang, Nimish C. Shah, Vincent J. Gnanapragasam, The CRUK-ICGC Prostate Group, William Isaacs, Tapio Visakorpi, Freddie Hamdy, Dan Berney, Clare Verrill, Anne Y. Warren, David C. Wedge, Andrew G. Lynch, Christopher S. Foster, Yong Jie Lu, G. Steven Bova, Hayley C. Whitaker, Ultan McDermott, David E. Neal, Rosalind Eeles, Colin S. Cooper, Daniel S. Brewer

A Rab5 GTPase module is important for autophagosome closure

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Analysis of nuclear and organellar genomes of Plasmodium knowlesi in humans reveals ancient population structure and recent recombination among host-specific subpopulations

Ernest Diez Benavente, Paola Florez de Sessions, Robert W. Moon, Anthony A. Holder, Michael J. Blackman, Cally Roper, Christopher J. Drakeley, Arnab Pain, Colin J. Sutherland, Martin L. Hibberd, Susana Campino, Taane G. Clark

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The relative contribution of DNA methylation and genetic variants on protein biomarkers for human diseases

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A high resolution atlas of gene expression in the domestic sheep (Ovis aries)

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Genomics-enabled analysis of the emergent disease cotton bacterial blight

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Defective erythropoiesis caused by mutations of the thyroid hormone receptor α gene

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Genome-wide chromatin mapping with size resolution reveals a dynamic sub-nucleosomal landscape in Arabidopsis

Daniel Antony Pass, Emily Sornay, Angela Marchbank, Margaret R. Crawford, Konrad Paszkiewicz, Nicholas A. Kent, James A. H. Murray

Glucosamine stimulates pheromone-independent dimorphic transition in Cryptococcus neoformans by promoting Crz1 nuclear translocation

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Chlamydomonas DYX1C1/PF23 is essential for axonemal assembly and proper morphology of inner dynein arms

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