Elite Alleles of EPE1 Identified via Genome-wide Association Studies Increase Panicle Elongation Length in Rice by Hao Sun, Qiqi Yao, Mei Hai, Tianhu Li, Jinghan Sun, Zhengbo Liu, Yang Ang, Yingying Zhao, Yanan Zhang, Xianping Cheng, Tao Huang, Yinping Chang, Mingyu Du, Erbao Liu

“…Therefore, OsGA2ox9 was identified as the key gene controlling PEL in rice. Haplotype analysis showed that the two polymorphisms of HapD cause amino acid residue changes from phenylalanine to leucine (F/L43) and isoleucine to phenylalanine (I/F52), which lead to the enhancement of panicle exsertion; therefore, we renamed this gene ENHANCED PANICLE EXSERTION (EPE1). …”
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Mutation Analysis of HTRA2 Gene in Chinese Familial Essential Tremor and Familial Parkinson’s Disease by Ya-Chao He, Pei Huang, Qiong-Qiong Li, Qian Sun, Dun-Hui Li, Tian Wang, Jun-Yi Shen, Juan-Juan Du, Shi-Shuang Cui, Chao Gao, Rao Fu, Sheng-Di Chen

“…There was no difference in allele, genotype, and haplotype between groups. Conclusions. HTRA2 exonic variant might be rare among Chinese Parkinson’s disease and essential tremor patients with family history, and HTRA2 may not be the cause of familial Parkinson’s disease and essential tremor in China.…”
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Plastome data provides new insights into population differentiation and evolution of Ginkgo in the Sichuan Basin of China by Liyun Nie, Fangling Liu, Meixia Wang, Zhuying Jiang, Jiali Kong, Luke R. Tembrock, Shenglong Kan, Penghao Wang, Jie Wang, Zhiqiang Wu, Xiaoli Liu

“…A previously undocumented haplotype (IIA2), predominant in western Sichuan Basin populations, showed close genetic affinity with rare refugial haplotypes. …”
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Identification, distribution, and hosts of Meloidogyne spp. infecting horticultural crops in Florida, USA with focus on Meloidogyne enterolobii by Riva Gabrieli, Brito Janete A., de Oliveira Clemen, Marin Marcus, Gu Mengyi, Bui Hung Xuan, Desaeger Johan

“…Meloidogyne species identification was performed using mitochondrial haplotype-based identification, species-specific primers, DNA sequencing and phylogenetic analysis. …”
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Effect of Staggered vs. Simultaneous Co-Administration of Bempedoic Acid on Pharmacokinetics of Pravastatin: Randomized, Cross-Over Clinical Trial in Healthy Volunteers by Felicitas Stoll, Salvatore Amato, Max Sauter, Jürgen Burhenne, Johanna Weiss, Walter E. Haefeli, Antje Blank

“…There was no significant difference between simultaneous vs. staggered administration of pravastatin and BA, possibly due to a population that was heterogenous in <i>SLCO1B1</i> haplotypes.…”
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Search for signals of positive selection of circadian rhythm genes <i>PER1</i>, <i>PER2</i>, <i>PER3</i> in different human populations by A. I. Mishina, S. Y. Bakoev, A. Y. Oorzhak, A. A. Keskinov, Sh. Sh. Kabieva, A. V. Korobeinikova, V. S. Yudin, M. M. Bobrova, D. A. Shestakov, V. V. Makarov, L. V. Getmantseva

“…Data were analyzed using publicly available data from the 1000 Genomes Project for 23 populations. The Extended Haplotype Homozygosity Score statistical method was chosen to search for traces of selection. …”
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Vitamin D Status and VDR Genotype in NF1 Patients: A Case-Control Study from Southern Brazil by Larissa Souza Mario Bueno, Clévia Rosset, Ernestina Aguiar, Fernando de Souza Pereira, Patrícia Izetti Ribeiro, Rosana Scalco, Camila Matzenbacher Bittar, Cristina Brinckmann Oliveira Netto, Guilherme Gischkow Rucatti, José Artur Chies, Suzi Alves Camey, Patricia Ashton-Prolla

“…These polymorphisms are in partial linkage disequilibrium and the haplotype frequencies also did not differ in a significant way between the two groups (p=0.613).…”
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Peroxisome Proliferator-Activated Receptor Gamma Polymorphisms and Coronary Heart Disease by Jean Dallongeville, Carlos Iribarren, Jean Ferrières, Liisa Lyon, Alun Evans, Alan S. Go, Dominique Arveiler, Stephen P. Fortmann, Pierre Ducimetière, Mark A. Hlatky, Philippe Amouyel, Audrey Southwick, Thomas Quertermous, Aline Meirhaeghe

“…No such association could be detected in ADVANCE. Haplotype distributions were similar in cases and control in both studies. …”
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Overexpression of multiple cytochrome P450 genes with and without knockdown resistance mutations confers high resistance to deltamethrin in Culex quinquefasciatus by Saowanee Chamnanya, Benyapa Kiddela, Jassada Saingamsook, Woottichai Nachaiwieng, Nongkran Lumjuan, Pradya Somboon, Jintana Yanola

“…The kdr L1014F mutation and the haplotype of the CYP9M10 gene were detected in survivor and dead mosquitoes after exposure to the deltamethrin WHO test paper. …”
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A Highly Divergent Mitochondrial Genome in Extant Cape Buffalo From Addo Elephant National Park, South Africa by Deon deJager, Marlo Möller, Eileen Hoal, Paul vanHelden, Brigitte Glanzmann, Cindy Harper, Paulette Bloomer

“…Hluhluwe–iMfolozi Park (n = 15) had low levels of genetic diversity, with only four haplotypes detected, reflecting its past bottleneck. …”
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Response to Infliximab in Crohn’s Disease: Genetic Analysis Supporting Expression Profile by Luz María Medrano, Carlos Taxonera, Cristina González-Artacho, Virginia Pascual, María Gómez-García, Manuel Barreiro-de Acosta, José L. Pérez-Calle, Fernando Bermejo, Antonio López-Sanromán, Dolores Martín Arranz, Javier P. Gisbert, Juan Luis Mendoza, Javier Martín, Concepción Núñez, Elena Urcelay

“…These differences were amplified in patients with colonic and ileocolonic location for all but the TNFAIP6 haplotype, which evidenced significant difference in ileal CD patients. …”
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Novel loci for triglyceride/HDL-C ratio longitudinal change among subjects without T2D by Lihua Wang, Siyu Wang, Jason A. Anema, Vaha A. Moghaddam, Yanli Lu, Shiow Lin, E. Warwick Daw, Allison L. Kuipers, Iva Miljkovic, Michael Brent, Gary J. Patti, Bharat Thygarajan, Joseph M. Zmuda, Michael A. Province, Ping An

“…GWAS used a linear mixed model accounting for familial relatedness. GWLS employed haplotype-based identity-by-descent estimation with 0.5 cM average spacing. …”
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TMEM187-IRAK1 Polymorphisms Associated with Rheumatoid Arthritis Susceptibility in Tunisian and French Female Populations: Influence of Geographic Origin by Olfa Khalifa, Nathalie Balandraud, Nathalie Lambert, Isabelle Auger, Jean Roudier, Audrey Sénéchal, David Geneviève, Christophe Picard, Gérard Lefranc, Isabelle Touitou, Bakridine M’Madi Mrenda, Cécilia Benedito, Etienne Pardoux, Anne-Laure Gagez, Yves-Marie Pers, Christian Jorgensen, Touhami Mahjoub, Florence Apparailly

“…In the French population, the GTC haplotype displayed a protective effect against RA, while the ATC, GCC, and GTT haplotypes conferred significant risk for RA. …”
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High clinical utility of long-read sequencing for precise diagnosis of congenital adrenal hyperplasia in 322 probands by Yunpeng Wang, Gaohui Zhu, Danhua Li, Yu Pan, Rong Li, Ting Zhou, Aiping Mao, Libao Chen, Jing Zhu, Min Zhu

“…Expand to 322 probands, the actual frequency of duplication haplotype (1.55%) could be calculated due to the accurate genotyping. …”
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Molecular Data Confirm the Occurrence of the Allochthonous <i>Gambusia holbrooki</i> (Pisces: Poeciliidae) in Sicily and the Maltese Archipelago by Luca Vecchioni, Mirko Liuzzo, Arnold Sciberras, Jeffrey Sciberras, Justin Formosa, Alan Deidun, Gabriele Giacalone, Vincenzo Arizza, Marco Arculeo, Federico Marrone, Francesco Paolo Faraone

“…Based on sequences of the mitochondrial cytochrome b gene, we consistently observed the occurrence of only <i>G. holbrooki</i> in the investigated area, finding, almost exclusively, the most common haplotype known for the species in the whole invaded range (i.e., “HOL1”).…”
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GWAS of CRP response to statins further supports the role of APOE in statin response: A GIST consortium study by Emma F. Magavern, Harshal Deshmukh, Geraldine Asselin, Elizabeth Theusch, Stella Trompet, Xiaohui Li, Raymond Noordam, Y.-D. Ida Chen, Teresa E. Seeman, Kent D. Taylor, Wendy S. Post, Jean-Claude Tardif, Dirk S. Paul, Emelia J. Benjamin, Nancy L. Heard-Costa, Ramachandran S. Vasan, Jerome I. Rotter, Ronald M. Krauss, J.Wouter Jukema, Paul M. Ridker, Patricia B. Munroe, Mark J. Caulfield, Daniel I. Chasman, Marie-Pierre Dubé, Graham A. Hitman, Helen R. Warren

“…The missense lead variant rs429358 at APOE, contributing to the APOE-E4 haplotype, is a risk locus for dyslipidaemia, Alzheimer’s and coronary artery disease (CAD). …”
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MOLECULAR DATING OF INTRASPECIFIC DIFFERENTIATION OF THE STOAT (MUSTELA ERMINEA) BASED ON THE VARIABILITY OF THE MITOCHONDRIAL ND2 GENE by B. A. Malyarchuk, G. A. Denisova, M. V. Derenko

“…Analysis of the data on ND2 variability in stoats presented here and in earlier studies shows that the divergence level between American and Eurasian mtDNA haplotypes is about 5 %, whereas that among Eurasian ones is as low as 0,5 %. …”
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Protocol for reconstructing ancestral genomes from present-day samples by applying local ancestry inference by Xiaoxi Zhang, Baonan Wang, Jia Wen, Yang Gao, Yuwen Pan, Shuhua Xu

“…We describe steps for estimating haplotypes, inferring local ancestry, and assembling ancestral haplotypes. …”
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Diversité des allotypes des immunoglobulines (systèmes Gm et Km) d’une population berbère de la vallée de Tacheddirt (Haut Atlas, Maroc). Comparaison à d’autres populations africai... by Jean-Michel Dugoujon, Olivia Lemaire, Evelyne Guitard, André Sevin, Georges Larrouy, Pedro Moral, Btissam Sabir, Abdellatif Baali, Mohamed Cherkaoui

“…Results show a relative homogeneity of the Berber populations (with about 20 % of sub-Saharan haplotypes). It is interesting to note that in the genetic structure of Touaregs from Algeria (Issequamarenes) there is a higher frequency of sub-Saharan haplotypes.…”
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Genetic Variability of Aspergillus flavus Isolates from a Mississippi Corn Field by Cesar D. Solorzano, Hamed K. Abbas, Robert M. Zablotowicz, Perng-Kuang Chang, Walker A. Jones

“…Variability in the sequence of the omtA gene of the majority of the field isolates (n=118) was compared to strain K49. High levels of haplotypic diversity (24 omtA haplotypes; Hd = 0.61 ± 0.04) were found. …”
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