分子动力学模拟与分子生物力学

生物大分子的微观结构动力学决定其生物学功能,其力学-化学耦合规律是分子生物力学的重点关注方向。分子动力学模拟是耦合生物大分子力学-化学性质微观结构动力学基础的有效手段,其结果可用于预测结构-功能关系、指导实验设计和诠释实验结果。本文简要介绍了分子动力学模拟的方法学特点、基本工作原理及其在分子生物力学中的应用,并展望了未来可能的发展方向和应用前景。     

Correlated Flexible Molecular Coding and Molecular Evolvability

Evolvability of biopolymers is based on molecular coding. The molecular coding is represented by biopolymer function vs monomeric sequence relationship, that is, a proper fitness landscape on the sequence space. On the other hand, molecular coding is mostly realized by monomeric sequence vs biopolymer structure relationship. We suggest the evolution of evolvability based on flexible or multiplex coding originating from flexible or polymorphic conformation of evolving biopolymers. We report a finding supporting that the amino acid landscape of the standard genetic code for an amino acid property which is more important to the protein function gives higher value of an evolvability measure. We developed a promising molecular construct which realized genotype-phenotype linking in order to study the in vitroprotein evolution to clarify above mentioned protein evolvability.     

Molecular drive

The review of the concept of molecular drive developed by Dover is presented. The ideas on the possible role of non-coding DNA are described and the duplication of genes as the fundamental factor preceding the appearance of the gene, which possesses a new function are characterized. The non-Mendelian processes--the non-equal crossing-over and the conversion of genes are considered. Molecular drive includes both these phenomena and the transposition of genes. The examples of drive are presented. Drive can be considered as the fundamental molecular mechanism of speciation and macroevolution. Evolution at molecular level is directly connected with the non-constancy of the genome and is non-Mendelian and non-Darwinian. Both the coding and non-coding DNA can serve as material for evolution.     

Molecular Entomology

正Molecular Entomology (ISSN 1925-198X) is an international, open access, peer reviewed journal, committed to publishing and disseminating significant original achievements pertaining to molecular entomology. All papers chosen for publication should be innovative research work in the related field, including genome structure of insects, gene expression and     

Molecular organisms

Protistology, and evolutionary protistology in particular, is experiencing a golden research era. It is an extended one that can be dated back to the 1970s, which is when the molecular rebirth of microbial phylogeny began in earnest. John Archibald, a professor of evolutionary microbiology at Dalhousie University (Nova Scotia, Canada), focuses on the beautiful story of endosymbiosis in his book, John Archibald, One Plus One Equals One: Symbiosis and the Origin of Complex Life (Oxford: Oxford University Press, 2014). However, this historical narrative could be treated as synecdochal of how the molecular revolution has changed evolutionary biology forever, and that is how Archibald has structured his book. I will address the encompassing theme of molecular methods in detail, but also pay careful attention to the endosymbiosis thread in its own right.     

Molecular Entomology

正Molecular Entomology(ISSN 1925-198X)is an international,open access,peer reviewed journal,committed to publishing and disseminating significant original achievements pertaining to molecular entomology.All papers chosen for publication should be innovative research work in the related field,including genome structure of insects,gene expression and     

Molecular Entomology

正Molecular Entomology(ISSN 1925-198X)is an international,open access,peer reviewed journal,committed to publishing and disseminating significant original achievements pertaining to molecular entomology.All papers chosen for publication should be innovative research work in the related field,including genome structure of insects,gene expression and     

Molecular Entomology

正Molecular Entomology(ISSN 1925-198X)is an international,open access,peer reviewed journal,committed to publishing and disseminating significant original achievements pertaining to molecular entomology.All papers chosen for publication should be innovative     

Molecular Entomology

正Molecular Entomology(ISSN 1925-198X)is an international,open access,peer reviewed journal,committed to publishing and disseminating significant original achievements pertaining to molecular entomology.All papers chosen for publication should be innovative research work in the related field,including genome structure of insects,gene expression and     

Molecular Entomology

正Molecular Entomology(ISSN 1925-198X)is an international,open access,peer reviewed journal,committed to publishing and disseminating significant original achievements pertaining to molecular entomology.All papers chosen for publication should be innovative research work in the related field,including genome structure of insects,gene expression and     

Molecular Entomology

正Molecular Entomology(ISSN 1925-198X)is an international,open access,peer reviewed journal,committed to publishing and disseminating significant original achievements pertaining to molecular entomology.All papers chosen for publication should be innovative research work in the related field,including genome structure of insects,gene expression and their function analysis,molecular evolution,molecular ecology,molecular genetics,insect     

Molecular polytomies

This paper focuses on polytomies, especially molecular polytomies. The distinction between molecular and species polytomies is important, but is often not made. Likelihood ratio tests are an easier method for detecting molecular polytomies than other methods cited herein. Simulation shows that parsimony will generally falsely resolve molecular polytomies, which is worrisome because a simple mathematical model described herein predicts that molecular polytomies will occur often when the mean branch length is small. A test of the model using several real molecular data sets indicates that molecular polytomies may actually occur more often than predicted by the model. This suggests that at least some published molecular parsimony trees contain clades that are false resolutions of polytomies. Finally, a possible method for detecting species polytomies from molecular data is described.     

Molecular beacons

This opinion covers the field of molecular beacons (MBs), in which nucleic acids are molecularly engineered to have unique functions for the investigation of biomolecules. Molecular beacons have been used in a variety of formats, and this review discusses four: first, in vitro RNA and DNA monitoring; second, biosensors and biochips based on MBs; third, real-time monitoring of genes and gene expression in living systems; and finally, the next generation of molecular beacons that will be highly useful for studies with proteins, molecular beacon aptamers. These unique applications have shown that MBs holds great potential in genomics and proteomics where real-time molecular recognition with high sensitivity and excellent specificity is critical.     

Molecular Entomology

正Molecular Entomology(ISSN 1925-198X)is an international,open access,peer reviewed journal,committed to publishing and disseminating significant original achievements pertaining to molecular entomology.All papers chosen for publication should be innovative research work in the related field,including genome structure of insects,gene expression and