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Jianrong Bai, Fengjie Sun, Minglei Wang, Liang Su, Rui Li, Gustavo Caetano-Anollés
In the original publication of the article, the incorrect version of Fig. 1 was mistakenly used. The correct version of the figure is provided in this correction.
October 31, 2018: Genetica
Jianrong Bai, Fengjie Sun, Minglei Wang, Liang Su, Rui Li, Gustavo Caetano-Anollés
The MYB-CC gene family encode proteins that harbor a combination of characteristic myeloblastosis (MYB) and coiled-coil (CC) domain structures. Some MYB-CC genes have been demonstrated to represent transcription factors regulating phosphate uptake and controlling the starvation response in plants. Despite their physiological importance, a systematic analysis of MYB-CC genes has not been reported in maize. In our study, we identified and characterized maize MYB-CC genes at whole-genome level. A total of 12 maize MYB-CC genes (ZmMYB-CC1 to ZmMYB-CC12) were identified located in six out of the 10 chromosomes of maize...
September 21, 2018: Genetica
Xiaohua Xia, Weiran Huo, Ruyan Wan, Peijin Wang, Zhongjie Chang
The mechanisms of sex determination and differentiation have not been elucidated in most fish species. In this study, the full-length cDNAs of DAX1 was cloned and characterized in aquaculture fish Chinese loach (Paramisgurnus dabryanus), designated as Pd-DAX1. The cDNA sequence of Pd-DAX1 was 1261 bp, including 795 bp open reading frame (ORF) encoding 264 amino acids. Pd-DAX1 shares highly identical sequence with DAX1 homologues from different species. The expression profiles of Pd-DAX1 in different developmental stages and diverse adult tissues were analyzed by quantitative real-time RT-PCR and in situ hybridization (ISH)...
September 11, 2018: Genetica
Crislaine Vanessa Ubinski, Leonardo Sousa Carvalho, Marielle Cristina Schneider
The recently-revised subfamily Centruroidinae is part of the New World clade of buthid scorpions. In this study, we analyzed the cytogenetic characteristics of nine of the 10 Brazilian centruroidines, and one undescribed species of the genus Ischnotelson, using a phylogenetic approach to determine the chromosomal rearrangements responsible for the differentiation of karyotypes among the species. The cytogenetic data recorded in the present study supported the new taxonomic arrangement of the Centruroidinae, with all the species of the same genus sharing the same or similar diploid numbers, i...
September 11, 2018: Genetica
Chuner Cai, Feng Liu, Ting Jiang, Lingke Wang, Rui Jia, Lingjie Zhou, Kai Gu, Jianfeng Ren, Peimin He
Since 2007, the annual green tide disaster in the Yellow Sea has brought serious economic losses to China. There is no research on the genetic similarities of four constituent species of green tide algae at the genomic level. We previously determined the mitochondrial genomes of Ulva prolifera, Ulva linza and Ulva flexuosa. In the present work, the mitochondrial genome of another green tide (Ulva compressa) was sequenced and analyzed. With the length of 62,311 bp, it contained 29 encoding genes, 26 tRNAs and 10 open reading frames...
December 2018: Genetica
U P Jacobina, S M Q Lima, D Gama Maia, G Souza, H Batalha-Filho, R A Torres
We assessed the presence of independent evolving lineages of the trahira, Hoplias malabaricus, one of the few freshwater fish species having wide distribution in the Neotropics which is the region with the highest global diversity of freshwater fish. To achieve that goal, 58 mitochondrial sequences of cytochrome c oxidase subunit I (COI; DNA barcoding) were generated from collected samples and 85 obtained from public databases, which were analyzed in comparison to chromosomal and geological data. The magnitude of genetic diversity found among different sampling sites was greater than 2%...
December 2018: Genetica
Dan Wang, Yan Sha, Junfeng Hu, Ting Yang, Xue Piao, Xiaohui Zhang
Plant disease resistance (R) genes have undergone significant evolutionary divergence to cope with rapid changes in pathogens. These highly variable evolutionary patterns may have contributed to diversity in R gene protein families or structures. Here, the evolutionary patterns of 76 identified R genes and their homologs were investigated within and between plant species. Results demonstrated that nucleotide binding sites and leucine-rich-repeat genes located in loci with complex evolutionary histories tended to evolve rapidly, have high variation in copy numbers, exhibit high levels of nucleotide variation and frequent gene conversion events, and also exhibit high non-synonymous to synonymous substitution ratios in LRR regions...
December 2018: Genetica
Jared P Wood, Stephanie Dowell Beer, Todd S Campbell, Robert B Page
Invasive species are a major threat to global biodiversity. The US state of Florida is especially susceptible to the spread of exotic reptiles due to its subtropical climate, disturbed habitats, and robust pet trade. The Argentine black-and-white tegu (Salvator merianae) is a large, omnivorous lizard currently established in two different regions of Southern Florida. These two populations pose potential threats to sensitive ground nesting species such as gopher tortoises, American crocodiles, and migratory birds...
December 2018: Genetica
Kenta Adachi, Sei-Ichi Okumura, Shunsuke Moriyama
The Japanese common sea cucumber (Apostichopus japonicus) is a major marine product from Sanriku, Japan, but its populations were severely affected by the 2011 Tohoku earthquake, possibly decreasing its genetic diversity and increasing its extinction risk. In this study, we estimated the genetic structure and diversity of sea cucumbers from Touni and Yamada Bays of Sanriku over 4 years after the earthquake. The between-population genetic structure was estimated using two mitochondrial DNA regions (cytochrome c oxidase subunit I and 16S rDNA)...
December 2018: Genetica
Abdul Latif Khan, Sajjad Asaf, In-Jung Lee, Ahmed Al-Harrasi, Ahmed Al-Rawahi
Pomegranate (Punica granatum L.) is one of the oldest known edible fruits. It has grown in popularity and is a profitable fruit crop due to its attractive features including a bright red appearance and its biological activities. Scientific exploration of the genetics and evolution of these beneficial traits has been hampered by limited genomic information. In this study, we sequenced the complete chloroplast (cp) genome of the native P. granatum (cultivar Helow) cultivated in the mountains of Jabal Al-Akhdar, Oman...
December 2018: Genetica
Charles Sylvester, Mysore Siddaiah Krishna, Jaya Sankar Rao, Adimoolam Chandrasekar
Unfortunately, the original version of this article was published with an error in the second sentence of the 'Molecular dating' section.
October 2018: Genetica
Maria Galludo, Jordi Canals, Laura Pineda-Cirera, Carla Esteve, Maria Rosselló, Joan Balanyà, Conxita Arenas, Francesc Mestres
Drosophila subobscura is a species with a rich chromosomal polymorphism which is adaptive to different climatic conditions. Five samples of the Font Groga population (Barcelona, Spain) were sampled in autumn during 5 consecutive years (2011-2015) to obtain their inversion chromosomal polymorphism, and climatic data of several meteorological variables were also collected. The aim was to analyze the adaptive potential of inversions with regard to climatic variables, being the most relevant: mean temperature (Tmean ), maximum temperature (Tmax ), minimum temperature (Tmin ), humidity (Hm) and rainfall (Rf)...
October 2018: Genetica
Juana Gutiérrez, Luz Lamelas, Gaël Aleix-Mata, María Arroyo, Juan Alberto Marchal, Teresa Palomeque, Pedro Lorite, Antonio Sánchez
The complete mitogenome of Talpa occidentalis, the Iberian mole, was sequenced using a combination of the Illumina and Sanger methods. The 16,962 bp genome obtained contains 13 protein-coding genes, 22 transfer RNAs, 2 ribosomal RNAs, and a control region. Thirty-seven identical repetitions of a 10-nucleotide (CACACGTACG) repeat element were identified in the non-coding control region (D-loop). The number, order, and orientation of the mitochondrial genes are the same as in T. europaea, the only mitogenome published so far for this genus...
October 2018: Genetica
Haokun Zhang, Takashi Kiuchi, Chikara Hirayama, Yutaka Banno, Susumu Katsuma, Toru Shimada
A variety of insects accumulate high contents of riboflavin (vitamin B2 ) in their Malpighian tubules (MTs). Although this process is known to be genetically controlled, the mechanism is not known. In the 1940s and the 1950s, several studies showed that riboflavin contents were low in the MTs of some Bombyx mori (silkworm) mutants with translucent larval skin mutations (e.g., w-3, od, oa, and otm) and that genes responsible for these translucent mutations also affected riboflavin accumulation in the MTs. Since the 2000s, it has been shown that the w-3 gene encodes an ABC transporter, whereas genes responsible for od, oa, and otm mutations encode for the biogenesis of lysosome-related organelles...
October 2018: Genetica
L M Buschiazzo, D A Caraballo, E Cálcena, M L Longarzo, C A Labaroni, J M Ferro, M S Rossi, A D Bolzán, Cecilia Lanzone
The genus Ctenomys comprises about 70 species with great chromosome diversity. The Corrientes group is one of the most chromosomally variable lineages in the genus, where the diploid number (2n) varies from 41 to 70. In this group, three nominal species and numerous polymorphic and polytypic populations have been described. In order to get insight into the chromosomal evolution of this species complex, we applied different banding and molecular cytogenetic techniques. The results were interpreted in an evolutionary context, based on mitochondrial cytochrome b analyses...
October 2018: Genetica
John S Hargrove, Debra J Murie, Daryl C Parkyn, Emily V Saarinen, James D Austin
The greater amberjack (Seriola dumerili) is a commercially and recreationally important marine fish species in the southeastern United States, where it has been historically managed as two non-mixing stocks (Gulf of Mexico and Atlantic). Mark-recapture studies and analysis of mitochondrial DNA have suggested the two stocks are demographically independent; however, little is currently known about when and where spawning occurs in Gulf of Mexico amberjack, and whether stock mixture occurs on breeding grounds...
October 2018: Genetica
Charles Sylvester, Mysore Siddaiah Krishna, Jaya Sankar Rao, Adimoolam Chandrasekar
The subsequent human migrations that dispersed out of Africa, both prehistoric and historic and colonization of India by modern humans is unanimous, and phylogeny of major mitochondrial DNA haplogroups have played a key role in assessing the genetic origin of people of India. To address more such events, complete mitogenomes of 113 Melakudiya tribe of Southern India were sequenced and 46 individuals showed the presence of west Eurasian autochthonous haplogroups HV14 and U7. Phylogenetic analysis revealed two novel subclades HV14a1b and HV14a1b1 and sequences representing haplogroup U7 were included under previously described subclade U7a3a1a2* specific to India...
October 2018: Genetica
Linsong Dong, Zhiyong Wang
Genomic prediction is feasible for estimating genomic breeding values because of dense genome-wide markers and credible statistical methods, such as Genomic Best Linear Unbiased Prediction (GBLUP) and various Bayesian methods. Compared with GBLUP, Bayesian methods propose more flexible assumptions for the distributions of SNP effects. However, most Bayesian methods are performed based on Markov chain Monte Carlo (MCMC) algorithms, leading to computational efficiency challenges. Hence, some fast Bayesian approaches, such as fast BayesB (fBayesB), were proposed to speed up the calculation...
October 2018: Genetica
Zakea Sultana, Akira Asakura, Sonoko Kinjo, Masafumi Nozawa, Tomoyuki Nakano, Kazuho Ikeo
The hermit crab genus Pagurus exhibits high species diversity and a wide geological distribution. Despite the high species diversity of hermit crabs in the western Pacific coast of Japan, molecular phylogenetic studies of these species have yet to be conducted. To investigate their molecular phylogeny and genetic diversity, we obtained nearly complete mitochondrial genome sequences for ten Pagurus species found along the Pacific coast of Japan by next-generation sequencing, which were compared to other congeners deposited in the GenBank database...
July 10, 2018: Genetica
Shanshan Gao, Wenfeng Xiong, Luting Wei, Juanjuan Liu, Xing Liu, Jia Xie, Xiaowen Song, Jingxiu Bi, Bin Li
Latrophilin of Tribolium castaneum (Tclph) has been reported to play crucial roles in growth, development and reproduction. However, the regulatory mechanism of Tclph associated with these physiology processes is unknown. Thus, the global transcriptome profiles between RNAi treated (ds-Tclph) and control larvae of T. castaneum were analyzed by RNA-sequencing. Totally, 274 differentially expressed genes (DEGs) were identified between the ds-Tclph and control samples. These DEGs were classified into 42 GO functional groups, including developmental process, reproduction and stress response...
June 2018: Genetica
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