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October 2016

Table of Contents - PeerJ (Biology Articles)

Extensive deep coral reefs in Hawaii harbor unique species and high coral cover

Randall Kosaki

October 4, 2016

Extensive deep coral reefs in Hawaii harbor unique species and high coral cover

Scientists report on a 20-year study to comprehensively document mesophotic coral ecosystems throughout the Hawaiian Archipelago.

October 18, 2016

VSEARCH: a versatile open source tool for metagenomics

Torbjørn Rognes, Tomáš Flouri, Ben Nichols, Christopher Quince, Frédéric Mahé

https://doi.org/10.7717/peerj.2584 PubMed 27781170

October 20, 2016

Ecological solutions to reef degradation: optimizing coral reef restoration in the Caribbean and Western Atlantic

Diego Lirman, Stephanie Schopmeyer

https://doi.org/10.7717/peerj.2597 PubMed 27781176

October 19, 2016

Green synthesis of silver nanoparticles in aloe vera plant extract prepared by a hydrothermal method and their synergistic antibacterial activity

Patcharaporn Tippayawat, Nutthakritta Phromviyo, Parichart Boueroy, Apiwat Chompoosor

https://doi.org/10.7717/peerj.2589 PubMed 27781173

October 4, 2016

A comprehensive investigation of mesophotic coral ecosystems in the Hawaiian Archipelago

Richard L. Pyle, Raymond Boland, Holly Bolick, Brian W. Bowen, Christina J. Bradley, Corinne Kane, Randall K. Kosaki, Ross Langston, Ken Longenecker, Anthony Montgomery, Frank A. Parrish, Brian N. Popp, John Rooney, Celia M. Smith, Daniel Wagner, Heather L. Spalding

https://doi.org/10.7717/peerj.2475 PubMed 27761310

October 5, 2016

The ethnobotany of psychoactive plant use: a phylogenetic perspective

Nashmiah Aid Alrashedy, Jeanmaire Molina

https://doi.org/10.7717/peerj.2546 PubMed 27761334

October 27, 2016

Comparative internal anatomy of Staurozoa (Cnidaria), with functional and evolutionary inferences

Lucília S. Miranda, Allen G. Collins, Yayoi M. Hirano, Claudia E. Mills, Antonio C. Marques

https://doi.org/10.7717/peerj.2594 PubMed 27812408

October 4, 2016

Geographical and altitudinal distribution of Brachycephalus (Anura: Brachycephalidae) endemic to the Brazilian Atlantic Rainforest

Marcos R. Bornschein, Carina R. Firkowski, Ricardo Belmonte-Lopes, Leandro Corrêa, Luiz F. Ribeiro, Sérgio A.A. Morato, Reuber L. Antoniazzi-Jr., Bianca L. Reinert, Andreas L.S. Meyer, Felipe A. Cini, Marcio R. Pie

https://doi.org/10.7717/peerj.2490 PubMed 27761312

October 13, 2016

YUCCA auxin biosynthetic genes are required for Arabidopsis shade avoidance

Patricia Müller-Moulé, Kazunari Nozue, Melissa L. Pytlak, Christine M. Palmer, Michael F. Covington, Andreah D. Wallace, Stacey L. Harmer, Julin N. Maloof

https://doi.org/10.7717/peerj.2574 PubMed 27761349

October 27, 2016

A new species of Brachycephalus (Anura: Brachycephalidae) from Santa Catarina, southern Brazil

Marcos R. Bornschein, Luiz F. Ribeiro, David C. Blackburn, Edward L. Stanley, Marcio R. Pie

https://doi.org/10.7717/peerj.2629 PubMed 27812425

October 20, 2016

A revision of Sanpasaurus yaoi Young, 1944 from the Early Jurassic of China, and its relevance to the early evolution of Sauropoda (Dinosauria)

Blair W. McPhee, Paul Upchurch, Philip D. Mannion, Corwin Sullivan, Richard J. Butler, Paul M. Barrett

https://doi.org/10.7717/peerj.2578 PubMed 27781168

October 18, 2016

Molecular phylogeny of the megadiverse insect infraorder Bibionomorpha sensu lato (Diptera)

Jan Ševčík, David Kaspřák, Michal Mantič, Scott Fitzgerald, Tereza Ševčíková, Andrea Tóthová, Mathias Jaschhof

https://doi.org/10.7717/peerj.2563 PubMed 27781163

October 11, 2016

Greater than X kb: a quantitative assessment of preservation conditions on genomic DNA quality, and a proposed standard for genome-quality DNA

Daniel G. Mulcahy, Kenneth S. Macdonald, Seán G. Brady, Christopher Meyer, Katharine B. Barker, Jonathan Coddington

https://doi.org/10.7717/peerj.2528 PubMed 27761327

October 25, 2016

Baseline reef health surveys at Bangka Island (North Sulawesi, Indonesia) reveal new threats

Massimo Ponti, Francesca Fratangeli, Nicolò Dondi, Marco Segre Reinach, Clara Serra, Michael J. Sweet

https://doi.org/10.7717/peerj.2614 PubMed 27812416

October 4, 2016

Did the 1918 influenza cause the twentieth century cardiovascular mortality epidemic in the United States?

Steven Tate, Jamie J. Namkung, Andrew Noymer

https://doi.org/10.7717/peerj.2531 PubMed 27761328

October 20, 2016

The cranial endocast of Dipnorhynchus sussmilchi (Sarcopterygii: Dipnoi) and the interrelationships of stem-group lungfishes

Alice M. Clement, Tom J. Challands, John A. Long, Per E. Ahlberg

https://doi.org/10.7717/peerj.2539 PubMed 27781157

October 27, 2016

Bone protein “extractomics”: comparing the efficiency of bone protein extractions of Gallus gallus in tandem mass spectrometry, with an eye towards paleoproteomics

Elena R. Schroeter, Caroline J. DeHart, Mary H. Schweitzer, Paul M. Thomas, Neil L. Kelleher

https://doi.org/10.7717/peerj.2603 PubMed 27812413

October 13, 2016

Judgement bias in goats (Capra hircus): investigating the effects of human grooming

Luigi Baciadonna, Christian Nawroth, Alan G. McElligott

https://doi.org/10.7717/peerj.2485 PubMed 27761311

October 5, 2016

Identification and temporal expression of putative circadian clock transcripts in the amphipod crustacean Talitrus saltator

Joseph F. O’Grady, Laura S. Hoelters, Martin T. Swain, David C. Wilcockson

https://doi.org/10.7717/peerj.2555 PubMed 27761341

October 18, 2016

The single-species metagenome: subtyping Staphylococcus aureus core genome sequences from shotgun metagenomic data

Sandeep J. Joseph, Ben Li, Robert A. Petit III, Zhaohui S. Qin, Lyndsey Darrow, Timothy D. Read

https://doi.org/10.7717/peerj.2571 PubMed 27781166

October 5, 2016

A new hynobiid-like salamander (Amphibia, Urodela) from Inner Mongolia, China, provides a rare case study of developmental features in an Early Cretaceous fossil urodele

Jia Jia, Ke-Qin Gao

https://doi.org/10.7717/peerj.2499 PubMed 27761316

October 27, 2016

Social buffering and contact transmission: network connections have beneficial and detrimental effects on Shigella infection risk among captive rhesus macaques

Krishna Balasubramaniam, Brianne Beisner, Jessica Vandeleest, Edward Atwill, Brenda McCowan

https://doi.org/10.7717/peerj.2630 PubMed 27812426

October 5, 2016

A transcriptomic scan for potential candidate genes involved in osmoregulation in an obligate freshwater palaemonid prawn (Macrobrachium australiense)

Azam Moshtaghi, Md. Lifat Rahi, Viet Tuan Nguyen, Peter B. Mather, David A. Hurwood

https://doi.org/10.7717/peerj.2520 PubMed 27761323

October 20, 2016

Taxonomy of Platypterygius campylodon and the diversity of the last ichthyosaurs

Valentin Fischer

https://doi.org/10.7717/peerj.2604 PubMed 27781178

October 11, 2016

Ecomorphological analysis of the astragalo-calcaneal complex in rodents and inferences of locomotor behaviours in extinct rodent species

Samuel Ginot, Lionel Hautier, Laurent Marivaux, Monique Vianey-Liaud

https://doi.org/10.7717/peerj.2393 PubMed 27761303

October 26, 2016

In silico study on anti-Chikungunya virus activity of hesperetin

Adrian Oo, Pouya Hassandarvish, Sek Peng Chin, Vannajan Sanghiran Lee, Sazaly Abu Bakar, Keivan Zandi

https://doi.org/10.7717/peerj.2602 PubMed 27812412

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