Article
Biochemistry & Molecular Biology
Lin Zhang, Xinxin Zhu, Yiyong Zhao, Jing Guo, Taikui Zhang, Weichen Huang, Jie Huang, Yi Hu, Chien-Hsun Huang, Hong Ma
Summary: The adaptation of Pooideae to cool climates has been influenced by gene duplications and regulatory mechanisms. Pooideae originated in the late Cretaceous and underwent divergences under cooling conditions. During the Eocene-Oligocene transition, Pooideae species experienced significant gene duplications and regulatory changes, promoting their adaptation to cold habitats.
MOLECULAR BIOLOGY AND EVOLUTION
(2022)
Article
Biochemistry & Molecular Biology
Oluwapelumi O. Adeyemi, Joseph C. Ward, Joseph S. Snowden, Morgan R. Herod, David J. Rowlands, Nicola J. Stonehouse
Summary: This study investigated the relationship between gene duplication and advantages in maintaining gene replication in small genomes of RNA viruses. The expansion of 3B copy numbers within the FMDV genome allows for the evolution of separate cis and trans acting functions, providing selective pressure to maintain multiple copies of 3B.
Article
Geochemistry & Geophysics
Erin G. Seagren, Mitchell McMillan, Lindsay M. Schoenbohm
Summary: The drainage patterns in orogens are controlled by local structures and subsequently influenced by regional slopes. However, in broken forelands, the uplift along steep faults results in significant relief, leading to different drainage patterns. This study focuses on the broken foreland of NW Argentina and identifies three distinct drainage patterns.
Article
Multidisciplinary Sciences
Lingtong Ye, Tuo Yao, Jie Lu, Jingzhe Jiang, Changming Bai
Summary: Contrary to early evidence, recent studies found that some species exhibit elevated rates of mitochondrial architecture evolution. Two congeneric shell-boring Spionidae species sequenced in this study showed very similar mitochondrial architecture with unique features, including completely rearranged gene orders. These species, along with two other sedentarian lineages, exhibited disproportionately elevated rates of mitogenomic architecture rearrangements and relaxed purifying selection pressures.
SCIENTIFIC REPORTS
(2021)
Article
Biology
Noam Shtolz, Dan Mishmar
Summary: By analyzing mtDNAs from about 8000 metazoans, it was found that most metazoans have highly conserved gene content and codon preferences in their mtDNA. However, gene order (MGO) is selectively constrained within but not between phyla, and certain gene stretches are highly conserved across metazoans. The analysis of RNA-seq data from 53 metazoans suggests that mtDNA rearrangements impact mtDNA regulation.
COMMUNICATIONS BIOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Zi Jie Lin, Xiaozhu Wang, Jinbin Wang, Yongjun Tan, Xueming Tang, John H. Werren, Dapeng Zhang, Xu Wang
Summary: In this study, mitochondrial genomes in Nasonia and outgroup species were sequenced, assembled, and annotated. Gene composition and order are conserved within Nasonia, but differ from other parasitoids due to two large inversion events. Additionally, a higher substitution rate and mitochondrial introgression were observed within Nasonia. These findings provide insights into the evolutionary history and genetic variation of insect mitochondrial DNA.
INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES
(2021)
Article
Multidisciplinary Sciences
Chunmao Huo, Fengyun Bao, Hong Long, Tingyang Qin, Shibin Zhang
Summary: This study sequenced and analyzed the complete mitochondrial genome of the pinworm W. compar that infects porcupines. It revealed the genetic relationship between W. compar and other nematodes, and discussed the potential applications of these genetic markers in taxonomy, population genetics, and phylogenetic studies.
SCIENTIFIC REPORTS
(2023)
Article
Multidisciplinary Sciences
Virginie Ricci, Fabrizia Ronco, Nicolas Boileau, Walter Salzburger
Summary: Through studying the retinal transcriptomes of cichlid fishes from Lake Tanganyika, we found that adaptive changes in gene expression at the macro-evolutionary and ecosystem level primarily occur through variation in the expression of a subset of cone opsin genes.
Article
Multidisciplinary Sciences
Ivan Rodrigo Wolf, Rafael Plana Simoes, Guilherme Targino Valente
Summary: The study reveals that K-nn, page rank, and degree are the most relevant topological features in GRNs, significantly influencing the control of life-essential subsystems. The importance of transcription factors in biological systems depends mainly on K-nn and page rank or degree. Gene/genome duplication is a crucial evolutionary process that enhances K-nn as the most relevant feature.
SCIENTIFIC REPORTS
(2021)
Article
Genetics & Heredity
Jorge Hermilo Vega Avalos, Luis Enrique Hernandez, Laura Yareni Zuniga, Maria Guadalupe Sanchez-Parada, Ana Elizabeth Gonzalez Santiago, Luis Miguel Roman Pintos, Rolando Castaneda Arellano, Luis Daniel Hernandez-Ortega, Arieh Roldan Mercado-Sesma, Felipe de Jesus Orozco-Luna, Raul C. Baptista-Rosas
Summary: The study found differences in mitochondrial sequences between breast cancer cases and control samples, with certain polymorphic changes significantly more frequent in breast cancer cases compared to controls. These changes are associated with the haplogroup H of Indo-European and Euro-Asiatic origins.
Article
Biotechnology & Applied Microbiology
Yan Zhong, Xiaohui Zhang, Qinglong Shi, Zong-Ming Cheng
Summary: The study systematically surveyed young duplicate genes at the genome-wide level among six Rosaceae species, revealing their important role in adaptive evolution and functional preference for environmental stresses. The high proportion of duplicate copies in plant genomes suggests that gene duplications drive the evolution of duplicates in response to environmental factors in Rosaceae species.
Article
Automation & Control Systems
Jing-Wen Xing, Chen Peng, Zhiru Cao
Summary: This paper proposes an event-triggered adaptive fuzzy tracking control method for high-order stochastic nonlinear systems. The fuzzy logic systems (FLSs) approximation approach is extended to handle the unknown nonlinear uncertainties. A novel high-order adaptive fuzzy tracking controller is presented using a backstepping approach and event-triggering mechanism, which reduces unnecessary waste of computation and communication resources. The effectiveness of the proposed control method is demonstrated through a numerical example.
JOURNAL OF THE FRANKLIN INSTITUTE-ENGINEERING AND APPLIED MATHEMATICS
(2022)
Article
Biochemistry & Molecular Biology
Elaine Francoso, Alexandre Rizzo Zuntini, Paulo Cseri Ricardo, Priscila Karla Ferreira Santos, Natalia de Souza Araujo, Joao Paulo Naldi Silva, Leonardo Tresoldi Goncalves, Rute Brito, Rosalyn Gloag, Benjamin A. Taylor, Brock A. Harpur, Benjamin P. Oldroyd, Mark J. F. Brown, Maria Cristina Arias
Summary: The mitochondrial genomes of two Australian bee species, Tetragonula carbonaria and T. hockingsi, have undergone duplication and rearrangements, leading to significant divergence from other species. This rapid evolution may be attributed to founder effect, low effective population size, and mitochondrial genome duplication.
INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES
(2023)
Article
Genetics & Heredity
Ying Wang, Fei Xiong, Zhaobin Song
Summary: This study used the mitochondrial genomes of 49 salmonid species to establish a robust phylogeny for the family Salmonidae. The results showed differences in mitochondrial DNA evolution patterns between anadromous and freshwater salmonids.
FRONTIERS IN GENETICS
(2022)
Article
Engineering, Civil
Cong-Zhi Liu, Liang Li, Jia-Wang Yong, Fahad Muhammad, Shuo Cheng, Qiong Wu
Summary: In this study, a novel H-infinity observer-based method is proposed for addressing packet dropouts, false alarms, false dismissals, and disturbances in the advanced driver assistant system (ADAS), enabling object tracking and car-following. By analyzing the adaptive cruise and Radar tracking characteristics, the ACC system with packet dropouts is modeled as a class of discrete-time linear switched system with four subsystems. The design criterion of the proposed H-infinity observer-based ACC is established by combining switched system and H-infinity theory, and the effectiveness of the method is demonstrated through four similar experiment scenarios.
IEEE TRANSACTIONS ON INTELLIGENT TRANSPORTATION SYSTEMS
(2021)
Article
Genetics & Heredity
Xuan Zhuang, Katherine R. Murphy, Laura Ghigliotti, Eva Pisano, C. -H. Christina Cheng
Article
Evolutionary Biology
Daniel P. Welsh, Muchu Zhou, Steven M. Mussmann, Lauren G. Fields, Claire L. Thomas, Simon P. Pearish, Stephanie L. Kilburn, Jerrod L. Parker, Laura R. Stein, Jennifer A. Bartlett, Christopher R. Bertram, Thomas J. Bland, Kate L. Laskowski, Brett C. Mommer, Xuan Zhuang, Rebecca C. Fuller
BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY
(2013)
Article
Biotechnology & Applied Microbiology
Xuan Zhuang, Chun Yang, Svein-Erik Fevolden, C-H Christina Cheng
Article
Biochemistry & Molecular Biology
Xuan Zhuang, Shaoxiong Ding, Jun Wang, Ying Wang, Yongquan Su
MOLECULAR ECOLOGY RESOURCES
(2009)
Article
Multidisciplinary Sciences
Xuan Zhuang, Meng Qu, Xiang Zhang, Shaoxiong Ding
Article
Biology
Kevin T. Bilyk, Xuan Zhuang, Katherine R. Murphy, C-H Christina Cheng
JOURNAL OF EXPERIMENTAL BIOLOGY
(2019)
Article
Multidisciplinary Sciences
Xuan Zhuang, Chun Yang, Katherine R. Murphy, C. -H. Christina Cheng
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2019)
Article
Biology
Liangbiao Chen, Ying Lu, Wenhao Li, Yandong Ren, Mengchao Yu, Shouwen Jiang, Yanxia Fu, Jian Wang, Sihua Peng, Kevin T. Bilyk, Katherine R. Murphy, Xuan Zhuang, Mathias Hune, Wanying Zhai, Wen Wang, Qianghua Xu, Chi-Hing Christina Cheng
Correction
Ecology
Kevin T. Bilyk, Xuan Zhuang, Luis Vargas-Chacoff, C-H Christina Cheng
Article
Genetics & Heredity
Xuan Zhuang, C. -H. Christina Cheng
Summary: This study investigates the evolutionary history of the de novo antifreeze glycoprotein (AFGP) gene and gene family in codfish lineages. Results show that the gene family originated once from a single ancestral genomic origin, and the processes of gene duplication and gene loss are distinctive in separate clades. Both genotype and phenotype are closely related to differential local selective pressures.
Article
Ecology
Kevin T. Bilyk, Xuan Zhuang, Luis Vargas-Chacoff, C-H Christina Cheng
Summary: This study examines how Antarctic notothenioid fishes have evolved in response to chronic cold conditions, leading to subtle and distinctive changes in the cellular apparatus for proteostasis and HSR. The research also shows that the selective pressure on maintaining HSF1 and HSEs in Antarctic fish has not been relaxed, with HSF1 experiencing intensified selective pressure and showing conserved sequence changes.
Article
Biology
Ding Shaoxiong, Zhuang Xuan, Guo Feng, Wang Jun, Su Yongquan, Zhang Qiyong, Li Qifu
SCIENCE IN CHINA SERIES C-LIFE SCIENCES
(2006)