Abstract:
:The bacterial endosymbionts (Buchnera) from the aphids Rhopalosiphum padi, R. maidis, Schizaphis graminum, and Acyrthosiphon pisum contain the genes for anthranilate synthase (trpEG) on plasmids made up of one or more 3.6-kb units. Anthranilate synthase is the first as well as the rate-limiting enzyme in the tryptophan biosynthetic pathway. The amplification of trpEG on plasmids may result in an increase of enzyme protein and overproduction of this essential amino acid, which is required by the aphid host. The nucleotide sequence of trpEG from endosymbionts of different species of aphids is highly conserved, as is an approximately 500-bp upstream DNA segment which has the characteristics of an origin of replication. Phylogenetic analyses were performed using trpE and trpG from the endosymbionts of these four aphids as well as from the endosymbiont of Schlechtendalia chinensis, in which trpEG occurs on the chromosome. The resulting phylogeny was congruent with trees derived from sequences of two chromosome-located bacterial genes (part of trpB and 16S ribosomal DNA). In turn, trees obtained from plasmid-borne and bacterial chromosome-borne sequences were congruent with the tree resulting from phylogenetic analysis of three aphid mitochondrial regions (portions of the small and large ribosomal DNA subunits, as well as cytochrome oxidase II). Congruence of trees based on genes from host mitochondria and from bacteria adds to previous support for exclusively vertical transmission of the endosymbionts within aphid lineages. Congruence with trees based on plasmid-borne genes supports the origin of the plasmid-borne trpEG from the chromosomal genes of the same lineage and the absence of subsequent plasmid exchange among endosymbionts of different species of aphids.
journal_name
J Mol Evoljournal_title
Journal of molecular evolutionauthors
Rouhbakhsh D,Lai CY,von Dohlen CD,Clark MA,Baumann L,Baumann P,Moran NA,Voegtlin DJdoi
10.1007/BF02498635subject
Has Abstractpub_date
1996-04-01 00:00:00pages
414-21issue
4eissn
0022-2844issn
1432-1432journal_volume
42pub_type
杂志文章abstract::Group selection is a matter of acute controversy among evolutionary biologists. The most well-publicized debate in this regard is that between Edward O. Wilson and Richard Dawkins. As is widely known, Edward O. Wilson is very excited about the idea of social selection and eusociality; by contrast Richard Dawkins favor...
journal_title:Journal of molecular evolution
pub_type: 社论
doi:10.1007/s00239-018-9841-0
更新日期:2018-04-01 00:00:00
abstract::Since their discovery in Metazoa, the three nuclear RNA polymerases (RNAPs) have been found in fungi, plants, and diverse protists. In all eukaryotes studied to date, RNAPs I, II, and III collectively transcribe all major RNAs made in the nucleus. We have found genes for the largest subunit (RPD1/RPE1) of a new DNA-de...
journal_title:Journal of molecular evolution
pub_type: 杂志文章
doi:10.1007/s00239-006-0093-z
更新日期:2007-01-01 00:00:00
abstract::The evolution of ligand specificity underlies many important problems in biology, from the appearance of drug resistant pathogens to the re-engineering of substrate specificity in enzymes. In studying biomolecules, however, the contributions of macromolecular sequence to binding specificity can be obscured by other se...
journal_title:Journal of molecular evolution
pub_type: 杂志文章
doi:10.1007/s00239-003-2481-y
更新日期:2003-09-01 00:00:00
abstract::Parsimony is commonly used to infer the direction of substitution and mutation. However, it is known that parsimony is biased when the base composition of the DNA sequence is skewed. Here I quantify this effect for several simple cases. The analysis demonstrates that parsimony can be misleading even when levels of seq...
journal_title:Journal of molecular evolution
pub_type: 杂志文章
doi:10.1007/pl00006427
更新日期:1998-12-01 00:00:00
abstract::Four cloned unique sequences from the human Y chromosome, two of which are found only on the Y chromosome and two of which are on both the X and Y chromosomes, were hybridized to restriction enzyme-treated DNA samples of a male and a female chimpanzee (Pan troglodytes), gorilla (Gorilla gorilla), and pig-tailed macaqu...
journal_title:Journal of molecular evolution
pub_type: 杂志文章
doi:10.1007/BF02603114
更新日期:1987-01-01 00:00:00
abstract::Computational analysis of the hypothetical open reading frame MJ0236 from Methanococcus jannaschii reveals its membership to a family of bacterial and eukaryotic proteins, predicted to be the HMP-P kinases involved in thiamin biosyntheis (ThiD). The eukaryotic members of this family contain a C-terminal extension simi...
journal_title:Journal of molecular evolution
pub_type: 信件
doi:10.1007/pl00013145
更新日期:1997-12-01 00:00:00
abstract::Sequence divergence among orthologous proteins was characterized with 34 amino acid replacement matrices, sequence context analysis, and a phylogenetic tree. The model was trained on very large datasets of aligned protein sequences drawn from 15 organisms including protists, plants, Dictyostelium, fungi, and animals. ...
journal_title:Journal of molecular evolution
pub_type: 杂志文章
doi:10.1007/s00239-005-0060-0
更新日期:2005-11-01 00:00:00
abstract::The dominant paradigm in origin of life research is that of an RNA world. However, despite experimental progress towards the spontaneous formation of RNA, the RNA world hypothesis still has its problems. Here, we introduce a novel computational model of chemical reaction networks based on RNA secondary structure and a...
journal_title:Journal of molecular evolution
pub_type: 杂志文章
doi:10.1007/s00239-017-9787-7
更新日期:2017-04-01 00:00:00
abstract::Natural populations of the Midas cichlid species in several different crater lakes in Nicaragua exhibit a conspicuous color polymorphism. Most individuals are dark and the remaining have a gold coloration. The color morphs mate assortatively and sympatric population differentiation has been shown based on neutral mole...
journal_title:Journal of molecular evolution
pub_type: 杂志文章
doi:10.1007/s00239-010-9340-4
更新日期:2010-05-01 00:00:00
abstract::Fimbrial adhesins allow bacteria to interact with and attach to their environment. The bacteria possibly benefit from these interactions, but all external structures including adhesins also allow bacteria to be identified by other organisms. Thus adhesion molecules might be under multiple forms of selection including ...
journal_title:Journal of molecular evolution
pub_type: 杂志文章
doi:10.1007/s002390010148
更新日期:2001-02-01 00:00:00
abstract::Nucleotide sequences for the kappa-casein precursor proteins have been determined from the genomic DNAs or hair roots of the Ruminantia. The coding regions, exons 2, 3, and 4, were amplified separately via the three kinds of PCRs and then directly sequenced. The primers were designed from the sequence of bovine kappa-...
journal_title:Journal of molecular evolution
pub_type: 杂志文章
doi:10.1007/BF00173165
更新日期:1995-12-01 00:00:00
abstract::The genome of Glycine max (L.) Merr. cv. "Dare" contains a chlorophyll a/b binding (Cab) protein gene family consisting of 10 genes. The primary structures of two linked Cab genes (Cab 4 and Cab 5) were determined. A comparison of the nucleic acid and predicted amino acid sequences of Cab 4 and Cab 5 revealed a high d...
journal_title:Journal of molecular evolution
pub_type: 杂志文章
doi:10.1007/BF02100210
更新日期:1989-09-01 00:00:00
abstract::The complete or partial sequences of 47 E. coli ribosomal proteins described in the literature have been examined by computerized search and matching programs. In contrast to results previously reported by other investigators, sequence homologies were uncovered among some of these ribosomal proteins that are well beyo...
journal_title:Journal of molecular evolution
pub_type: 杂志文章
doi:10.1007/BF01732666
更新日期:1980-05-01 00:00:00
abstract::A fundamental paradox motivates the study of plant mitochondrial genomics: the mutation rate is very low (lower than in the nucleus) but the rearrangement rate is high. A landmark paper published in Journal of Molecular Evolution in 1988 established these facts and revealed the paradox. Jeffrey Palmer and Laura Herbon...
journal_title:Journal of molecular evolution
pub_type: 杂志文章
doi:10.1007/s00239-020-09980-y
更新日期:2021-01-24 00:00:00
abstract::We examined the cis- vs. trans-splicing status of the mitochondrial group II intron nad1i728 in 439 species (427 genera) of land plants, using both Southern hybridization results (for 416 species) and intron sequence data from the literature. A total of 164 species (157 genera), all angiosperms, was found to have a tr...
journal_title:Journal of molecular evolution
pub_type: 杂志文章
doi:10.1007/s00239-004-2606-y
更新日期:2004-07-01 00:00:00
abstract::The human S100 gene family encodes the EF-hand superfamily of calcium-binding proteins, with at least 14 family members clustered relatively closely together on chromosome 1q21. We have analyzed the most recently available genomic sequence of the human S100 gene cluster for evidence of tandem gene duplications during ...
journal_title:Journal of molecular evolution
pub_type: 杂志文章
doi:10.1007/s00239-002-2410-5
更新日期:2003-04-01 00:00:00
abstract::The major histocompatibility complex (MHC) consists of polymorphic frozen blocks (PFBs) that are linked to form megabase haplotypes. These blocks consist of polymorphic sequences and define regions where recombination appears to be inhibited. We have been able to show, using a highly polymorphic sequence centromeric o...
journal_title:Journal of molecular evolution
pub_type: 杂志文章
doi:10.1007/pl00006194
更新日期:1997-07-01 00:00:00
abstract::An emergent problem in the study of pathogen evolution is our ability to determine the extent to which their rapidly evolving genomes recombine. Such information is necessary and essential for locating pathogenicity loci using association studies, and it also directs future screening, therapeutic and vaccination strat...
journal_title:Journal of molecular evolution
pub_type: 杂志文章
doi:10.1007/s00239-003-2543-1
更新日期:2004-03-01 00:00:00
abstract::In mammals, chicken-type (c-type) lysozymes are part of the innate immune system, killing bacteria by degrading peptidoglycan in their cell walls. Many of the studies on the evolution of c-type lysozymes have focused on its new digestive function, including the duplicated stomach lysozymes in ruminants. Similarly, in ...
journal_title:Journal of molecular evolution
pub_type: 杂志文章
doi:10.1007/s00239-019-09910-7
更新日期:2019-12-01 00:00:00
abstract::Using all currently predicted coding regions in the honeybee genome, a novel form of synonymous codon bias is presented that affects the usage of particular codons dependent on the surrounding nucleotides in the coding region. Nucleotides at the third codon site are correlated, dependent on their weak (adenine [A] or ...
journal_title:Journal of molecular evolution
pub_type: 杂志文章
doi:10.1007/s00239-006-0198-4
更新日期:2007-06-01 00:00:00
abstract::We have studied the metal-ion catalysis of a number of reactions of the isomers of ImpGpG on a poly(C) template. In the absence of a catalytic metal ion, oligomers at least up to (pG)20 are obtained from the ImpGpG isomers in a 1-methylimidazole buffer. The Pb2+ ion improves the yield of longer oligomers and changes s...
journal_title:Journal of molecular evolution
pub_type: 杂志文章
doi:10.1007/BF01795752
更新日期:1981-01-01 00:00:00
abstract::The problem of determining the minimal phylogenetic tree is discussed in relation to graph theory. It is shown that this problem is an example of the Steiner problem in graphs which is to connect a set of points by a minimal length network where new points can be added. There is no reported method of solving realistic...
journal_title:Journal of molecular evolution
pub_type: 杂志文章
doi:10.1007/BF01732868
更新日期:1979-07-18 00:00:00
abstract::Sequences were obtained from five species of rodents that are orthologous to an H2a histone pseudogene from Mus musculus. The pseudogene is part of the cluster of replication-dependent histone genes found on Mus musculus chromosome 13. Comparative analysis of these five sequences together with the previously published...
journal_title:Journal of molecular evolution
pub_type: 杂志文章
doi:10.1007/pl00006312
更新日期:1998-03-01 00:00:00
abstract::In this study, a new strategy for the selection of aptamers against small-molecule target was established using gold nanoparticles (AuNPs) as the separation matrix and Zinc(II)-Protoporphyrin IX (ZnPPIX) as the target molecule without the immobilization step due to the absorption of ssDNA on AuNPs. The progress of the...
journal_title:Journal of molecular evolution
pub_type: 杂志文章
doi:10.1007/s00239-019-09905-4
更新日期:2019-09-01 00:00:00
abstract::Type 1 (archaeal) rhodopsins and related rhodopsin-like proteins had been described in a few halophile archaea, gamma-proteobacteria, a single cyanobacteria, some fungi, and a green alga. In exhaustive database searches, we detected rhodopsin-related sequences derived not only from additional fungal species but also f...
journal_title:Journal of molecular evolution
pub_type: 杂志文章
doi:10.1007/s00239-003-2557-8
更新日期:2004-03-01 00:00:00
abstract::We present a new approach for analyzing directional mutation pressure and nucleotide content in protein-coding genes. Directional mutation pressure, the heterogenicity in the likelihood of different nucleotide substitutions, is used to explain the increasing or decreasing guanine-cytosine content (GC%) in DNA and is r...
journal_title:Journal of molecular evolution
pub_type: 杂志文章
doi:10.1007/BF00163805
更新日期:1994-08-01 00:00:00
abstract::As the origin(s) of life on Earth remains an open question, detailed characteristics about the "last universal ancestor" (LUA) continue to be obscured. Here we provide arguments that strengthen the bacterial-like nature of the LUA. Our view attempts to recreate the evolution of archaeal lipids, the major components of...
journal_title:Journal of molecular evolution
pub_type: 杂志文章
doi:10.1007/s00239-006-0141-8
更新日期:2007-03-01 00:00:00
abstract::Hypothetical Products from Noncoding Frames (i.e., HyPNoFs) are hypothetical, not-coded proteins, translated from alternate reading frames (i.e., coding + 1 and coding + 2) of cDNAs. HyPNoFs of CD4, PKC, oncostatin, bcl-2 proto-oncogene, tumor suppressor p53, cystic fibrosis transmembrane regulator (CFTR), and tumor n...
journal_title:Journal of molecular evolution
pub_type: 杂志文章
doi:10.1007/BF00160503
更新日期:1995-06-01 00:00:00
abstract::The monotremes, the duck-billed platypus and the echidnas, are characterized by a number of unique morphological characteristics, which have led to the common belief that they represent the living survivors of an ancestral stock of mammals. Analysis of new data from the complete mitochondrial (mt) genomes of a second ...
journal_title:Journal of molecular evolution
pub_type: 杂志文章
doi:10.1007/s00239-001-0019-8
更新日期:2002-01-01 00:00:00
abstract::Cosmochemical considerations suggest various potential sources for the accumulation of organic matter on Mars. However the Viking Molecular Analysis did not indicate any indigenous organic compounds on the surface of Mars. Their disappearance from the top layer is most likely caused by the combined action of the high ...
journal_title:Journal of molecular evolution
pub_type: 杂志文章
doi:10.1007/BF01732374
更新日期:1979-12-01 00:00:00