AbstractChrysopogon aciculatus (Retz.) Trin. is one of the most important warm-season turfgrass and one of the distribution centers in China, widely distributed in tropical regions of South China. ...
The development of long-read sequencing technologies, such as single-molecule real-time (SMRT) sequencing by PacBio, has produced a revolution in the sequencing of small genomes. Sequencing organelle genomes using PacBio long-read data is a cost effective, straightforward approach. Nevertheless, the availability of simple-to-use software to perform the assembly from raw reads is limited at present. We present Organelle-PBA, a Perl program designed specifically for the assembly of chloroplast and...
Motivation: Phylogenies are increasingly used in all fields of medical and biological research. Moreover, because of the next-generation sequencing revolution, datasets used for conducting phylogenetic analyses grow at an unprecedented pace. RAxML (Randomized Axelerated Maximum Likelihood) is a popular program for phylogenetic analyses of large datasets under maximum likelihood. Since the last RAxML paper in 2006, it has been continuously maintained and extended to accommodate the increasingly g...
We report a major update of the MAFFT multiple sequence alignment program. This version has several new features, including options for adding unaligned sequences into an existing alignment, adjustment of direction in nucleotide alignment, constrained alignment and parallel processing, which were implemented after the previous major update. This report shows actual examples to explain how these features work, alone and in combination. Some examples incorrectly aligned by MAFFT are also shown to ...
Summary: The two main functions of bioinformatics are the organization and analysis of biological data using computational resources. Geneious Basic has been designed to be an easy-to-use and flexible desktop software application framework for the organization and analysis of biological data, with a focus on molecular sequences and related data types. It integrates numerous industry-standard discovery analysis tools, with interactive visualizations to generate publication-ready images. One key c...
Sixteen indicators related to external morphology were assessed to make a preliminary assessment of morphological characteristic of 28 Chrysopogon aciculatus accessions from different geographical distributions.The results were as fellows: ①There was rich diversity in morphological index,green period,and turf quality of C.aciculatus,the variant coefficient of 80.80% for ear length was the highest,the leaf width of 12.36% was the lowest,the average of all variation was 39.41%;②The grass layers we...
This study concerns 39 different grass species occurring in the wetland regions of Godavari delta in the west Godavari district (16°15′–17°30′N and 80°50′–81°55′E) of Andhra Pradesh, southern India. In each species, the sexual status of lemmas, the period of stigma receptivity, pollen/ovule ratio, pollen longevity and daily pollen release were examined. The functional sexual systems were determined after performing controlled pollinations and testing seed quality by weight and germination potent...
Summary: The Dual Organellar GenoMe Annotator (DOGMA) automates the annotation of organellar (plant chloroplast and animal mitochondrial) genomes. It is a Web-based package that allows the use of BLAST searches against a custom database, and conservation of basepairing in the secondary structure of animal mitochondrial tRNAs to identify and annotate genes. DOGMA provides a graphical user interface for viewing and editing annotations. Annotations are stored on our password-protected server to ena...
Abstract A stopped flow kinetic analysis has been performed with a homogeneous protein fraction of plant glutamate dehydrogenase. The enzyme exerts strong negative cooperativity with ammonium as variable substrate. The limiting initial rate constants for low substrate concentrations, as calculated from the kinetic data, indicate that the catalytic efficiency of the enzyme increases at low ammonium concentrations. From this it becomes evident that the reductive amination reaction is highly adapti...
