G3: Genes|Genomes|Genetics is pleased to offer the Genome Report article type to enable rapid review and publication of high-quality reports describing whole genome sequence (WGS) data of organisms and/or strains.
The editors of G3 recognize that many WGS datasets describing strain variation, comparative analysis of different model organism species, among other analyses should be made available to the community in an accessible format, even though there may not be substantial new biological insights yet associated with the study. The Genome Report format is succinct, and the guidelines (details here) are designed to make it fast and easy for authors to submit, for reviewers to rapidly assess, and for readers to easily understand the report and its results.
Current Articles
Whole Genome Sequence of the Commercially Relevant Mushroom Strain Agaricus bisporus var. bisporus ARP23
Eoin O’Connor, Jamie McGowan, Charley G. P. McCarthy, Aniça Amini, Helen Grogan, David A. Fitzpatrick
G3: Genes, Genomes, Genetics October 2019 9: 3057-3066; https://doi.org/10.1534/g3.119.400563
Greenlip Abalone (Haliotis laevigata) Genome and Protein Analysis Provides Insights into Maturation and Spawning
Natasha A. Botwright, Min Zhao, Tianfang Wang, Sean McWilliam, Michelle L. Colgrave, Ondrej Hlinka, Sean Li, Saowaros Suwansa-ard, Sankar Subramanian, Luke McPherson, Harry King, Antonio Reverter, Mathew T. Cook, Annette McGrath, Nicholas G. Elliott, Scott F. Cummins
G3: Genes, Genomes, Genetics October 2019 9: 3067-3078; https://doi.org/10.1534/g3.119.400388
De Novo Genome Sequence Assemblies of Gossypium raimondii and Gossypium turneri
Joshua A. Udall, Evan Long, Chris Hanson, Daojun Yuan, Thiruvarangan Ramaraj, Justin L. Conover, Lei Gong, Mark A. Arick, Corrinne E. Grover, Daniel G. Peterson, Jonathan F. Wendel
G3: Genes, Genomes, Genetics October 2019 9: 3079-3085; https://doi.org/10.1534/g3.119.400392
Genome Sequencing of Pleurozium schreberi: The Assembled and Annotated Draft Genome of a Pleurocarpous Feather Moss
Eric R. A. Pederson, Denis Warshan, Ulla Rasmussen
G3: Genes, Genomes, Genetics September 2019 9: 2791-2797; https://doi.org/10.1534/g3.119.400279
De Novo Genome Sequence Assembly of Dwarf Coconut (Cocos nucifera L. ‘Catigan Green Dwarf’) Provides Insights into Genomic Variation Between Coconut Types and Related Palm Species
Darlon V. Lantican, Susan R. Strickler, Alma O. Canama, Roanne R. Gardoce, Lukas A. Mueller, Hayde F. Galvez
G3: Genes, Genomes, Genetics August 2019 9: 2377-2393; https://doi.org/10.1534/g3.119.400215
High Quality Draft Genome of Arogyapacha (Trichopus zeylanicus), an Important Medicinal Plant Endemic to Western Ghats of India
Biju Vadakkemukadiyil Chellappan, Shidhi PR, Sheethal Vijayan, Veena S. Rajan, Anu Sasi, Achuthsankar S. Nair
G3: Genes, Genomes, Genetics August 2019 9: 2395-2404; https://doi.org/10.1534/g3.119.400164
Population Genome Sequencing of the Scab Fungal Species Venturia inaequalis, Venturia pirina, Venturia aucupariae and Venturia asperata
Bruno Le Cam, Dan Sargent, Jérôme Gouzy, Joëlle Amselem, Marie-Noëlle Bellanger, Olivier Bouchez, Spencer Brown, Valérie Caffier, Marie De Gracia, Robert Debuchy, Ludovic Duvaux, Thibaut Payen, Mélanie Sannier, Jason Shiller, Jérôme Collemare, Christophe Lemaire
G3: Genes, Genomes, Genetics August 2019 9: 2405-2414; https://doi.org/10.1534/g3.119.400047
A Reference Genome Sequence for the European Silver Fir (Abies alba Mill.): A Community-Generated Genomic Resource
Elena Mosca, Fernando Cruz, Jèssica Gómez-Garrido, Luca Bianco, Christian Rellstab, Sabine Brodbeck, Katalin Csilléry, Bruno Fady, Matthias Fladung, Barbara Fussi, Dušan Gömöry, Santiago C. González-Martínez, Delphine Grivet, Marta Gut, Ole Kim Hansen, Katrin Heer, Zeki Kaya, Konstantin V. Krutovsky, Birgit Kersten, Sascha Liepelt, Lars Opgenoorth, Christoph Sperisen, Kristian K. Ullrich, Giovanni G. Vendramin, Marjana Westergren, Birgit Ziegenhagen, Tyler Alioto, Felix Gugerli, Berthold Heinze, Maria Höhn, Michela Troggio, David B. Neale
G3: Genes, Genomes, Genetics June 2019 9: 2039-2049; https://doi.org/10.1534/g3.119.400083
Sequencing of a Wild Apple (Malus baccata) Genome Unravels the Differences Between Cultivated and Wild Apple Species Regarding Disease Resistance and Cold Tolerance
Xilong Chen, Shiming Li, Dong Zhang, Mingyu Han, Xin Jin, Caipin Zhao, Songbo Wang, Libo Xing, Juanjuan Ma, Jingjing Ji, Na An
G3: Genes, Genomes, Genetics June 2019 9: 2051-2060; https://doi.org/10.1534/g3.119.400245
Whole Genome Sequencing and Re-sequencing of the Sable Antelope (Hippotragus niger): A Resource for Monitoring Diversity in ex Situ and in Situ Populations
Klaus-Peter Koepfli, Gaik Tamazian, David Wildt, Pavel Dobrynin, Changhoon Kim, Paul B. Frandsen, Raquel Godinho, Andrey A. Yurchenko, Aleksey Komissarov, Ksenia Krasheninnikova, Sergei Kliver, Sofia Kolchanova, Margarida Gonçalves, Miguel Carneiro, Pedro Vaz Pinto, Nuno Ferrand, Jesús E. Maldonado, Gina M. Ferrie, Leona Chemnick, Oliver A. Ryder, Warren E. Johnson, Pierre Comizzoli, Stephen J. O’Brien, Budhan S. Pukazhenthi
G3: Genes, Genomes, Genetics June 2019 9: 1785-1793; https://doi.org/10.1534/g3.119.400084
The Genome of C57BL/6J “Eve”, the Mother of the Laboratory Mouse Genome Reference Strain
Vishal Kumar Sarsani, Narayanan Raghupathy, Ian T. Fiddes, Joel Armstrong, Francoise Thibaud-Nissen, Oraya Zinder, Mohan Bolisetty, Kerstin Howe, Doug Hinerfeld, Xiaoan Ruan, Lucy Rowe, Mary Barter, Guruprasad Ananda, Benedict Paten, George M. Weinstock, Gary A. Churchill, Michael V. Wiles, Valerie A. Schneider, Anuj Srivastava, Laura G. Reinholdt
G3: Genes, Genomes, Genetics June 2019 9: 1795-1805; https://doi.org/10.1534/g3.119.400071
Evolution of Antibiotic Synthesis Gene Clusters in the Streptomyces globisporus TFH56, Isolated from Tomato Flower
Gyeongjun Cho and Youn-Sig Kwak
G3: Genes, Genomes, Genetics June 2019 9: 1807-1813; https://doi.org/10.1534/g3.119.400037
The Chromosome-Level Genome Assembly of European Grayling Reveals Aspects of a Unique Genome Evolution Process Within Salmonids
Tiina Sävilammi, Craig R. Primmer, Srinidhi Varadharajan, René Guyomard, Yann Guiguen, Simen R. Sandve, L. Asbjørn Vøllestad, Spiros Papakostas, Sigbjørn Lien
G3: Genes, Genomes, Genetics May 2019 9: 1283-1294; https://doi.org/10.1534/g3.118.200919
The Whole Genome Sequence and mRNA Transcriptome of the Tropical Cyclopoid Copepod Apocyclops royi
Tue Sparholt Jørgensen, Bolette Lykke Holm Nielsen, Bent Petersen, Patrick Denis Browne, Benni Winding Hansen, Lars Hestbjerg Hansen
G3: Genes, Genomes, Genetics May 2019 9: 1295-1302; https://doi.org/10.1534/g3.119.400085
Whole Genome Sequencing and Progress Toward Full Inbreeding of the Mouse Collaborative Cross Population
John R. Shorter, Maya L. Najarian, Timothy A. Bell, Matthew Blanchard, Martin T. Ferris, Pablo Hock, Anwica Kashfeen, Kathryn E. Kirchoff, Colton L. Linnertz, J. Sebastian Sigmon, Darla R. Miller, Leonard McMillan, Fernando Pardo-Manuel de Villena
G3: Genes, Genomes, Genetics May 2019 9: 1303-1311; https://doi.org/10.1534/g3.119.400039
Genome and Ontogenetic-Based Transcriptomic Analyses of the Flesh Fly, Sarcophaga bullata
Ellen O. Martinson, Justin Peyton, Yogeshwar D. Kelkar, Emily C. Jennings, Joshua B. Benoit, John H. Werren, David L. Denlinger
G3: Genes, Genomes, Genetics May 2019 9: 1313-1320; https://doi.org/10.1534/g3.119.400148
Genomic Analysis of Pseudomonas sp. Strain SCT, an Iodate-Reducing Bacterium Isolated from Marine Sediment, Reveals a Possible Use for Bioremediation
Masafumi Harada, Kohei Ito, Nobuyoshi Nakajima, Shigeki Yamamura, Masaru Tomita, Haruo Suzuki, Seigo Amachi
G3: Genes, Genomes, Genetics May 2019 9: 1321-1329; https://doi.org/10.1534/g3.118.200978
Diploid Genome Assembly of the Wine Grape Carménère
Andrea Minio, Mélanie Massonnet, Rosa Figueroa-Balderas, Alvaro Castro, Dario Cantu
G3: Genes, Genomes, Genetics May 2019 9: 1331-1337; https://doi.org/10.1534/g3.119.400030
TP901-1 Phage Recombinase Facilitates Genome Engineering in Drosophila melanogaster
Roumen Voutev, Richard S. Mann
G3: Genes, Genomes, Genetics April 2019 9: 983-986; https://doi.org/10.1534/g3.119.0002
Genomic Resources for Goniozus legneri, Aleochara bilineata and Paykullia maculata, Representing Three Independent Origins of the Parasitoid Lifestyle in Insects
Ken Kraaijeveld, Peter Neleman, Janine Mariën, Emile de Meijer, Jacintha Ellers
G3: Genes, Genomes, Genetics April 2019 9: 987-991; https://doi.org/10.1534/g3.119.300584
Genome Analyses of a New Mycoplasma Species from the Scorpion Centruroides vittatus
Tsunemi Yamashita, Douglas D. Rhoads, Jeff Pummill
G3: Genes, Genomes, Genetics April 2019 9: 993-997; https://doi.org/10.1534/g3.118.200858
Improved Genome Sequence of Wild Emmer Wheat Zavitan with the Aid of Optical Maps
Tingting Zhu, Le Wang, Juan C. Rodriguez, Karin R. Deal, Raz Avni, Assaf Distelfeld, Patrick E. McGuire, Jan Dvorak, Ming-Cheng Luo
G3: Genes, Genomes, Genetics March 2019 9: 619-624; https://doi.org/10.1534/g3.118.200902
Draft Genome Assembly and Population Genetics of an Agricultural Pollinator, the Solitary Alkali Bee (Halictidae: Nomia melanderi)
Karen M. Kapheim, Hailin Pan, Cai Li, Charles Blatti, Brock A. Harpur, Panagiotis Ioannidis, Beryl M. Jones, Clement F. Kent, Livio Ruzzante, Laura Sloofman, Eckart Stolle, Robert M. Waterhouse, Amro Zayed, Guojie Zhang, William T. Wcislo
G3: Genes, Genomes, Genetics March 2019 9: 625-634; https://doi.org/10.1534/g3.118.200865
Genome-Wide Analysis of Mycoplasma dispar Provides Insights into Putative Virulence Factors and Phylogenetic Relationships
Shengli Chen, Huafang Hao, Xinmin Yan, Yongsheng Liu, Yuefeng Chu
G3: Genes, Genomes, Genetics February 2019 9: 317-325; https://doi.org/10.1534/g3.118.200941
Highly Continuous Genome Assembly of Eurasian Perch (Perca fluviatilis) Using Linked-Read Sequencing
Mikhail Yu. Ozerov, Freed Ahmad, Riho Gross, Lilian Pukk, Siim Kahar, Veljo Kisand, Anti Vasemägi
G3: Genes, Genomes, Genetics December 2018 8: 3737-3743; https://doi.org/10.1534/g3.118.200768
Highly Contiguous Genome Assemblies of 15 Drosophila Species Generated Using Nanopore Sequencing
Danny E. Miller, Cynthia Staber, Julia Zeitlinger, R. Scott Hawley
G3: Genes, Genomes, Genetics October 2018 8: 3131-3141; https://doi.org/10.1534/g3.118.200160
The Sleep Inbred Panel, a Collection of Inbred Drosophila melanogaster with Extreme Long and Short Sleep Duration
Yazmin L. Serrano Negron, Nancy F. Hansen, Susan T. Harbison
G3: Genes, Genomes, Genetics September 2018 8: 2865-2873; https://doi.org/10.1534/g3.118.200503
Whole Genome Sequence of the Parasitoid Wasp Microplitis demolitor That Harbors an Endogenous Virus Mutualist
Gaelen R. Burke, Kimberly K. O. Walden, James B. Whitfield, Hugh M. Robertson, Michael R. Strand
G3: Genes, Genomes, Genetics September 2018 8: 2875-2880; https://doi.org/10.1534/g3.118.200308
Insights into the Structure of the Spruce Budworm (Choristoneura fumiferana) Genome, as Revealed by Molecular Cytogenetic Analyses and a High-Density Linkage Map
Sandrine Picq, Lisa Lumley, Jindra Šíchová, Jérôme Laroche, Esther Pouliot, Bryan M. T. Brunet, Roger C. Levesque, Felix A. H. Sperling, František Marec, Michel Cusson
G3: Genes, Genomes, Genetics August 2018 8: 2539-2549; https://doi.org/10.1534/g3.118.200263
Assessment of an Organ-Specific de Novo Transcriptome of the Nematode Trap-Crop, Solanum sisymbriifolium
Alexander Q. Wixom, N. Carol Casavant, Joseph C. Kuhl, Fangming Xiao, Louise-Marie Dandurand, Allan B. Caplan
G3: Genes, Genomes, Genetics July 2018 8: 2135-2143; https://doi.org/10.1534/g3.118.200327
A High Quality Genome for Mus spicilegus, a Close Relative of House Mice with Unique Social and Ecological Adaptations
Matthew B. Couger, Lena Arévalo, Polly Campbell
G3: Genes, Genomes, Genetics July 2018 8: 2145-2152; https://doi.org/10.1534/g3.118.200318
A High-Quality Reference Genome for the Invasive Mosquitofish Gambusia affinis Using a Chicago Library
Sandra L. Hoffberg, Nicholas J. Troendle, Travis C. Glenn, Ousman Mahmud, Swarnali Louha, Domitille Chalopin, Jeffrey L. Bennetzen, Rodney Mauricio
G3: Genes, Genomes, Genetics June 2018 8: 1855-1861; https://doi.org/10.1534/g3.118.200101
Whole Genome Sequence of an Edible and Potential Medicinal Fungus, Cordyceps guangdongensis
Chenghua Zhang, Wangqiu Deng, Wenjuan Yan, Taihui Li
G3: Genes, Genomes, Genetics June 2018 8: 1863-1870; https://doi.org/10.1534/g3.118.200287
Improved Genome Assembly and Annotation for the Rock Pigeon (Columba livia)
Carson Holt, Michael Campbell, David A. Keays, Nathaniel Edelman, Aurélie Kapusta, Emily Maclary, Eric T. Domyan, Alexander Suh, Wesley C. Warren, Mark Yandell, M. Thomas P. Gilbert, Michael D. Shapiro
G3: Genes, Genomes, Genetics May 2018 8: 1391-1398; https://doi.org/10.1534/g3.117.300443
Robust ΦC31-Mediated Genome Engineering in Drosophila melanogaster Using Minimal attP/attB Phage Sites
Roumen Voutev, Richard S. Mann
G3: Genes, Genomes, Genetics May 2018 8: 1399-1402; https://doi.org/10.1534/g3.118.200051
The Draft Genome of the Invasive Walking Stick, Medauroidea extradendata, Reveals Extensive Lineage-Specific Gene Family Expansions of Cell Wall Degrading Enzymes in Phasmatodea
Philipp Brand, Wei Lin, Brian R. Johnson
G3: Genes, Genomes, Genetics May 2018 8: 1403-1408; https://doi.org/10.1534/g3.118.200204
QTL Mapping of Genome Regions Controlling Manganese Uptake in Lentil Seed
Duygu Ates, Secil Aldemir, Bulent Yagmur, Abdullah Kahraman, Hakan Ozkan, Albert Vandenberg, Muhammed Bahattin Tanyolac
G3: Genes, Genomes, Genetics May 2018 8: 1409-1416; https://doi.org/10.1534/g3.118.200259
Genome-Wide Analysis of Mycoplasma bovirhinis GS01 Reveals Potential Virulence Factors and Phylogenetic Relationships
Shengli Chen, Huafang Hao, Ping Zhao, Yongsheng Liu, Yuefeng Chu
G3: Genes, Genomes, Genetics May 2018 8: 1417-1424; https://doi.org/10.1534/g3.118.200018
Identification of Two Distinct Classes of the Human INO80 Complex Genome-Wide
John S. Runge, Jesse R. Raab, Terry Magnuson
G3: Genes, Genomes, Genetics April 2018 8: 1095-1102; https://doi.org/10.1534/g3.117.300504
Transcriptome Analysis of Litsea cubeba Floral Buds Reveals the Role of Hormones and Transcription Factors in the Differentiation Process
Wenguang He, Yicun Chen, Ming Gao, Yunxiao Zhao, Zilong Xu, Pei Cao, Qiyan Zhang, Yulian Jiao, Hongsheng Li, Liwen Wu, Yangdong Wang
G3: Genes, Genomes, Genetics April 2018 8: 1103-1114; https://doi.org/10.1534/g3.117.300481
The Genomes of Four Meyerozyma caribbica Isolates and Novel Insights into the Meyerozyma guilliermondii Species Complex
Leone De Marco, Sara Epis, Aida Capone, Elena Martin, Jovana Bozic, Elena Crotti, Irene Ricci, Davide Sassera
G3: Genes, Genomes, Genetics March 2018 8: 755-759; https://doi.org/10.1534/g3.117.300316
Whole Genome Sequencing of Hulunbuir Short-Tailed Sheep for Identifying Candidate Genes Related to the Short-Tail Phenotype
Dafu Zhi, Lai Da, Moning Liu, Chen Cheng, Yukun Zhang, Xin Wang, Xiunan Li, Zhipeng Tian, Yanyan Yang, Tingyi He, Xin Long, Wei Wei, Guifang Cao
G3: Genes, Genomes, Genetics February 2018 8: 377-383; https://doi.org/10.1534/g3.117.300307
Genome Assembly and Annotation of the Medicinal Plant Calotropis gigantea, a Producer of Anticancer and Antimalarial Cardenolides
Genevieve M. Hoopes, John P. Hamilton, Jeongwoon Kim, Dongyan Zhao, Krystle Wiegert-Rininger, Emily Crisovan, C. Robin Buell
G3: Genes, Genomes, Genetics February 2018 8: 385-391; https://doi.org/10.1534/g3.117.300331
Reference Quality Genome Assemblies of Three Parastagonospora nodorum Isolates Differing in Virulence on Wheat
Jonathan K. Richards, Nathan A. Wyatt, Zhaohui Liu, Justin D. Faris, Timothy L. Friesen
G3: Genes, Genomes, Genetics February 2018 8: 393-399; https://doi.org/10.1534/g3.117.300462
Reference Assembly and Annotation of the Pyrenophora teres f. teres Isolate 0-1
Nathan A. Wyatt, Jonathan K. Richards, Robert S. Brueggeman, Timothy L. Friesen
G3: Genes, Genomes, Genetics January 2018 8: 1-8; https://doi.org/10.1534/g3.117.300196
High-Quality de Novo Genome Assembly of the Dekkera bruxellensis Yeast Using Nanopore MinION Sequencing
Téo Fournier, Jean-Sébastien Gounot, Kelle Freel, Corinne Cruaud, Arnaud Lemainque, Jean-Marc Aury, Patrick Wincker, Joseph Schacherer, Anne Friedrich
G3: Genes, Genomes, Genetics October 2017 7: 3243-3250; https://doi.org/10.1534/g3.117.300128
Whole Genome Sequence of the Heterozygous Clinical Isolate Candida krusei 81-B-5
Christina A. Cuomo, Terrance Shea, Bo Yang, Reeta Rao, Anja Forche
G3: Genes, Genomes, Genetics September 2017 7: 2883-2889; https://doi.org/10.1534/g3.117.043547
The Nuclear and Mitochondrial Genomes of the Facultatively Eusocial Orchid Bee Euglossa dilemma
Philipp Brand, Nicholas Saleh, Hailin Pan, Cai Li, Karen M. Kapheim, Santiago R. Ramírez
G3: Genes, Genomes, Genetics September 2017 7: 2891-2898; https://doi.org/10.1534/g3.117.043687
Genome-Wide Analysis of the First Sequenced Mycoplasma capricolum subsp. capripneumoniae Strain M1601
Shengli Chen, Huafang Hao, Ping Zhao, François Thiaucourt, Ying He, Pengcheng Gao, Han Guo, Wenheng Ji, Zhanhui Wang, Zhongxin Lu, Yuefeng Chu, Yongsheng Liu
G3: Genes, Genomes, Genetics September 2017 7: 2899-2906; https://doi.org/10.1534/g3.117.300085
Whole Genome Sequencing of the Braconid Parasitoid Wasp Fopius arisanus, an Important Biocontrol Agent of Pest Tepritid Fruit Flies
Scott M. Geib, Guang Hong Liang, Terence D. Murphy, Sheina B. Sim
G3: Genes, Genomes, Genetics August 2017 7: 2407-2411; https://doi.org/10.1534/g3.117.040741
Comparative Genomics of Two Sequential Candida glabrata Clinical Isolates
Luis Vale-Silva, Emmanuel Beaudoing, Van Du T. Tran, Dominique Sanglard
G3: Genes, Genomes, Genetics August 2017 7: 2413-2426; https://doi.org/10.1534/g3.117.042887
Insight into the Recent Genome Duplication of the Halophilic Yeast Hortaea werneckii: Combining an Improved Genome with Gene Expression and Chromatin Structure
Sunita Sinha, Stephane Flibotte, Mauricio Neira, Sean Formby, Ana Plemenitaš, Nina Gunde Cimerman, Metka Lenassi, Cene Gostinčar, Jason E. Stajich, Corey Nislow
G3: Genes, Genomes, Genetics July 2017 7: 2015-2022; https://doi.org/10.1534/g3.117.040691
Whole-Genome Sequence of the Metastatic PC3 and LNCaP Human Prostate Cancer Cell Lines
Inge Seim, Penny L. Jeffery, Patrick B. Thomas, Colleen C. Nelson, Lisa K. Chopin
G3: Genes, Genomes, Genetics June 2017 7: 1731-1741; https://doi.org/10.1534/g3.117.039909
Genome Report: Identification and Validation of Antigenic Proteins from Pajaroellobacter abortibovis Using De Novo Genome Sequence Assembly and Reverse Vaccinology
Bryan T. Welly, Michael R. Miller, Jeffrey L. Stott, Myra T. Blanchard, Alma D. Islas-Trejo, Sean M. O’Rourke, Amy E. Young, Juan F. Medrano, Alison L. Van Eenennaam
G3: Genes, Genomes, Genetics February 2017 7: 321-331; doi: 10.1534/g3.116.036673
Whole Genome Sequence of Two Wild-Derived Mus musculus domesticus Inbred Strains, LEWES/EiJ and ZALENDE/EiJ, with Different Diploid Numbers
Andrew P. Morgan, John P. Didion, Anthony G. Doran, James M. Holt, Leonard McMillan, Thomas M. Keane, and Fernando Pardo-Manuel de Villena
G3: Genes, Genomes, Genetics December 2016 6:4211-4216; doi:10.1534/g3.116.034751