Wentao Sheng^1,2,*

Phyton-International Journal of Experimental Botany, Vol.94, No.7, pp. 2015-2031, 2025, DOI:10.32604/phyton.2025.066232 - 31 July 2025

Abstract Rorippa indica is a wild oilseed crop of Brassicaceae with good environmental adaptability and strong stress resistance. This plant has become an important wild relative species for rapeseed (Brassica napus L.) and is used to improve its agronomic traits, with important development and utilization value. However, the research of R. indica genetics is still lacking. And no mitochondrial genome (mitogenome) in the genus Rorippa has been expounded. To analyze the structural characteristics of the R. indica mitogenome, second-generation and third-generation sequencing techniques were made to assemble its mitogenome. The results showed that its mitogenome is composed of a single master… More >

Zichen Li^1,#, Jukui Ma^2,#, Minjun Liu³, Guowei Geng^1,*, Hongxia Zhang^1,*

Phyton-International Journal of Experimental Botany, Vol.94, No.6, pp. 1841-1856, 2025, DOI:10.32604/phyton.2025.066148 - 27 June 2025

Abstract Sweet potatoes are significant cash crops, however, their yield and quality are greatly compromised by viral diseases. In this study, the complete genomic sequences of two Sweet Potato Virus 2 (SPV2) isolates from infected sweet potato leaves in the Shandong (designated as SPV2-SDYT, GenBank No. PQ855660.1) and Jiangsu (designated as SPV2-JSXZ, GenBank No. PQ855661.1) provinces in China were obtained using 5^′ RACE and RT-PCR amplification. Consistency, phylogeny, codon usage bias, recombination, and selection pressure analyses were conducted using the SPV2-SDYT and SPV2-JSXZ genome sequences. The complete genome sequences of SPV2-SDYT and SPV2-JSXZ were 10561 nucleotides (nt)… More >

Wentao Sheng^*

Phyton-International Journal of Experimental Botany, Vol.94, No.2, pp. 331-345, 2025, DOI:10.32604/phyton.2025.061424 - 06 March 2025

Abstract Pyrola atropurpurea Franch is an important annual herbaceous plant. Few genomic analyses have been conducted on this plant, and chloroplast genome research will enrich its genomics basis. This study is based on high-throughput sequencing technology and Bioinformatics methods to obtain the sequence, structure, and other characteristics of the P. atropurpurea chloroplast genome. The result showed that the chloroplast genome of P. atropurpurea has a double-stranded circular structure with a total length of 172,535 bp and a typical four-segment structure. The genome has annotated a total of 132 functional genes, including 43 tRNAs, 8 rRNAs, 76 protein-coding genes, and… More >

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 >

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 >

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 >

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 >

Yuhao Weng¹, Liming Zhu², Yan Ma³, Hao Su¹, Lu Lu¹, Pengkai Wang¹, Jinhui Chen¹, Asif Ali¹, Renhua Zheng^4,*, Jisen Shi^1,*

Phyton-International Journal of Experimental Botany, Vol.89, No.2, pp. 375-384, 2020, DOI:10.32604/phyton.2020.08831 - 22 April 2020

Abstract Cerasus Campanulata is one of several species belonging to the Prunoideae focke, a subfamily of the flowering plant Rosaceae. We investigated the details of its chloroplast genome which may reveal its genus independent of morphological determination. Here, we determined the complete chloroplast (cp) genome sequence of C. campanulata and performed sequence analysis to reveal the presence of 18 forward repeats, 20 palindrome repeats, 2 complement repeats, 4 reverse repeats and 93 simple sequence repeats (SSRs). We additionally performed a comparative study of C. campanulata and seven other Prunoideae focke species. Then, maximum parsimony (MP) and maximum likelihood (ML) More >