Riwa Mahai¹, Rongpeng Liu¹, Xiaolang Du¹, Zejing Mu¹, Xiaoyun Wang^1,*, Jun Yuan^2,*

Phyton-International Journal of Experimental Botany, Vol.93, No.6, pp. 1203-1219, 2024, DOI:10.32604/phyton.2024.051559 - 27 June 2024

Abstract Rosaceae represents a vast and complex group of species, with its classification being intricate and contentious. The taxonomic placement of many species within this family has been a subject of ongoing debate. The study utilized the Illumina platform to sequence 19 plant species from 10 genera in the Rosaceae. The cp genomes, varying in size from 153,366 to 159,895 bp, followed the typical quadripartite organization consisting of a large single-copy (LSC) region (84,545 to 87,883 bp), a small single-copy (SSC) region (18,174 to 19,259 bp), and a pair of inverted repeat (IR) regions (25,310 to… More >

Ji-Yang Zuo^1,2, Huan-Xin Chen^1,2, Zhi-Gang Liu^1,2, Qin Yang^1,2, Guo-Wei He^1,2,*

Congenital Heart Disease, Vol.18, No.1, pp. 7-21, 2023, DOI:10.32604/chd.2022.025451 - 09 January 2023

Abstract Background: Atrial septal defect (ASD) is one of the common congenital heart diseases. The MYH6 gene has a critical role in cardiac development but the role of MYH6 promoter variants in patients with ASD has not been explored. Methods: In 613 subjects including 320 ASD patients, we investigated the MYH6 gene promoter variants and verified the effect on gene expression by using cellular functional experiments and bioinformatics analysis. Results: Eleven variants were identified in the MYH6 gene promoter, of which four variants were found only in ASD patients, and two variants (g.3434G>C and g.4524C>T) were identified for the first… More > Graphic Abstract

Ahmad Ali AlZubi^*, Jazem Mutared Alanazi

Intelligent Automation & Soft Computing, Vol.35, No.3, pp. 3599-3611, 2023, DOI:10.32604/iasc.2023.027913 - 17 August 2022

Abstract Pathway reconstruction, which remains a primary goal for many investigations, requires accurate inference of gene interactions and causality. Non-coding RNA (ncRNA) is studied because it has a significant regulatory role in many plant and animal life activities, but interacting micro-RNA (miRNA) and long non-coding RNA (lncRNA) are more important. Their interactions not only aid in the in-depth research of genes’ biological roles, but also bring new ideas for illness detection and therapy, as well as plant genetic breeding. Biological investigations and classical machine learning methods are now used to predict miRNA-lncRNA interactions. Because biological identification… More >

Xiaolei Ding, Ruiwen Zhao, Sixi Lin, Jianren Ye^*

Phyton-International Journal of Experimental Botany, Vol.91, No.12, pp. 2813-2825, 2022, DOI:10.32604/phyton.2022.024609 - 29 August 2022

Abstract In Bazhong City, Sichuan Province, China, top dieback symptoms were found on many pine trees (Pinus thunbergii Parl). The tips of old needles first turned grayish-green and then developed into brown bands in the field. Phylogenetic analysis of concatenated ITS and EF1-α indicated the pathogen of this dieback disease as Diplodia neojuniperi. Additionally, effects of temperature, pH and medium on the mycelial growth were also characterized. The most favorable temperature and pH level for mycelial growth are 25°C and 8, respectively. The optimal medium for mycelial growth is PDA medium. To our knowledge, this is the first More >

Yujia Leng^1,#, Shuilian Wang^1,2,3,#, Ruoan Wang^2,#, Tao Tao¹, Shuwen Jia^1,2, Tao Song^2,3, Lina Xu^1,2, Xiuling Cai^1,2, Sukui Jin^1,2,*, Jiping Gao^1,2,4,*

Phyton-International Journal of Experimental Botany, Vol.91, No.5, pp. 943-958, 2022, DOI:10.32604/phyton.2022.018707 - 24 January 2022

Abstract Grain size traits are critical agronomic traits which directly determine grain yield, but the genetic bases of these traits are still not well understood. In this study, a total of 154 chromosome segment substitution lines (CSSLs) population derived from a cross between a japonica variety Koshihikari and an indica variety Nona Bokra was used to investigate grain length (GL), grain width (GW), length-width ratio (LWR), grain perimeter (GP), grain area (GA), and thousand grain weight (TGW) under four environments. QTL mapping analysis of six grain size traits was performed by QTL IciMapping 4.2 with an inclusive… More >

HUI-YING JIN^1,2, MAO-SONG PEI^1,2, DA-LONG GUO^1,2,*

BIOCELL, Vol.46, No.4, pp. 941-949, 2022, DOI:10.32604/biocell.2022.016718 - 15 December 2021

Abstract To understand the molecular characteristics of the miR477 gene family of grape (Vvi-miR477) and to predict its target genes, the Vvi-miR477 genes were identified from previous small RNA sequencing data, then phylogenetic analysis and prediction of target gene were conducted. The Vvi-miR477 family consists of two precursor sequences and three mature sequences. The miR477 family members were mostly 19-22nt in length. The sequence is relatively conservative. Vvi-MIR477a and Vvi-MIR477b are located on chromosomes 1 and 2, respectively. These precursor sequences can form the typical stable stem-loop structure. Their minimum folding free energy is −39.10 kcal/mol and −50.90 kcal/mol, More >

LEI JIANG^1,2,3,#, SHUAI LI^1,#, XIZI JIANG¹, TONG JIANG^1,2,3,*

BIOCELL, Vol.45, No.6, pp. 1695-1702, 2021, DOI:10.32604/biocell.2021.015250 - 01 September 2021

Abstract It was rarely reported about strawberry vein banding virus (SVBV) genome sequence in China and most countries worldwide. In this work, we determined the complete genome sequences of two SVBV isolates in China, designated SVBV-AH and SVBV-BJ, that were obtained from naturally infected strawberry samples from Anhui province and Beijing city of China, respectively. The complete genomes of SVBV-AH and SVBV-BJ were 7,862 nucleotides (nts) and 7,863 nts long, respectively, and both constituted with seven genes typical of the caulimoviruses. Alignment of complete nucleotide sequences showed that SVBV-AH and SVBV-BJ shared a significant nucleotide sequence… More >

HSIUYING WANG^1,2,*

BIOCELL, Vol.45, No.3, pp. 547-561, 2021, DOI:10.32604/biocell.2021.014343 - 03 March 2021

Abstract Amyotrophic lateral sclerosis (ALS), also called Lou Gehrig’s disease, is an irreversible disease that is caused by the degeneration and death of motor neurons. Approximately 5–10% of cases are familial ALS (fALS), and the other cases are sporadic ALS (sALS). Gene mutations have been identified both in fALS and sALS patients. In this study, we discuss the four ALS-related genes, C9orf72, SOD1, FUS, and TARDBP, and review the microRNAs (miRNAs) that are associated with ALS and other neurological disorders from the literature. A phylogenetic analysis is used to explore potential miRNAs that can be taken More >

Zhenzhong Jiang¹, Peng Jiao¹, Zhuo Qi¹, He Zhao², Jing Qu², Siyan Liu¹, Dan Yao¹, Piwu Wang², Shuyan Guan^1,*, Yiyong Ma^2,*

Phyton-International Journal of Experimental Botany, Vol.90, No.2, pp. 449-459, 2021, DOI:10.32604/phyton.2021.013247 - 07 February 2021

Abstract The concept of gene-function-genetic trait was introduced to explore the effects of early flowering on the growth and development of maize at the jointing stage and to obtain early flowering mutants using ethyl methanesulfonate mutagenesis. First, we studied gene expression, phytohormones, and lignin content to explore the physiological peculiarities of the early flowering mutant. Then we analyzed the genetic features of the mutants during the jointing stage by measuring physiological and biochemical indices of drought tolerance. The results showed that the photosynthetic rate of the mutant was significantly higher than that of the control and More >

Yingting Zhang^1,2,3, Junjie Yang^1,2,3, Zhenhao Guo^1,2,3, Jiaxing Mo^1,2,3, Jiebing Cui^1,2,3, Hailiang Hu^1,2,3, Jin Xu^1,2,3,*

Phyton-International Journal of Experimental Botany, Vol.89, No.4, pp. 957-986, 2020, DOI:10.32604/phyton.2020.011211 - 09 November 2020

Abstract Cryptomeria fortunei (Chinese cedar) is a highly adaptable woody species and one of the main forest plantation trees in subtropical high-altitude areas in China. However, there are few studies on its chloroplast (cp) genome. In this study, the complete cp genome of C. fortunei was sequenced and evaluated via comparative analyses with those of related species (formerly the Taxodiaceae) in Cupressaceae. The C. fortunei cp genome was 131,580 bp in length, and the GC content of the whole genome was 35.38%. It lost one relevant large inverted repeat and contained 114 unique genes, including 82 protein-coding genes, 28… More >