The complete plastid genome of the endangered species midget crabapple (Malus micromalus)

Hu, Yiheng; Ma, Zhenhua; Dang, Meng; Feng, Xiaojia; Sun, Yiwei; Xu, Yuan; Ouyang, Xianheng; Woeste, Keith; Zhao, Peng

doi:10.1007/s12686-017-0867-1

Cited by 5 publications

(3 citation statements)

References 11 publications

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“…The overall GC contents were 36.6%. A total of 110 unique genes were found, including 78 protein-coding genes, 28 tRNAs, and 4 rRNAs, in which the total genes number was different from that in other reported Malus cp genomes (Bao et al 2016;Hu et al 2018;Zhang et al 2018Zhang et al , 2019Yan et al 2019). Moreover, six protein-coding genes (rpl2, rpl23, ycf2, ndhB, rps7, and rps12), seven tRNA genes (trnI-CAU, trnL-CAA, trnV-GAC, trnI-GAU, trnA-UGC, trnN-GUU, and trnR-ACG), and all rRNA genes (rrn4.5, rrn 5, rrn16, and rrn 23) were located at the IR regions.…”

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confidence: 65%

The complete chloroplast genome of apple rootstock ‘M9’

Zhao

Yan

Ding

et al. 2019

Mitochondrial DNA Part B

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The dwarf M9 ( Malus domestica ‘M9’) rootstock is the most widely available Malus rootstock, here we report the complete chloroplast (cp) genome of ‘M9’ rootstock. The size of the complete cp genome was 159,926 bp, with the large-copy (LSC, 88,065 bp) regions, small single-copy (SSC, 19,157 bp) regions, and two inverted repeat regions (IRs, 26,352 bp each). It contained 110 genes, including 78 protein-coding genes, 28 transfer RNA genes (tRNA), and 4 ribosomal RNA genes (rRNA). A phylogenetic tree demonstrated that ‘M9’ rootstock was closely related to M. hupehensis , M. baccata , M. prunifolia , M. micromalus , and M. tschonoskii .

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confidence: 65%

The complete chloroplast genome of apple rootstock ‘M9’

Zhao

Yan

Ding

et al. 2019

Mitochondrial DNA Part B

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“…and four other species of Rosaceae ( Eriobotrya salwinensis Hand.-Mazz. ( Liu et al, 2019b ), Malus × micromalus Makino ( Hu et al, 2017 ), Spiraea mongolica Maxim. ( Ma et al, 2021 ), and Rubus phoenicolasius Maxim.…”

Section: Introductionmentioning

confidence: 99%

Comparative Genomic and Phylogenetic Analysis of Chloroplast Genomes of Hawthorn (Crataegus spp.) in Southwest China

Luo

Zhang

et al. 2022

Front. Genet.

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The hawthorns (Crataegus spp.) are widely distributed and famous for their edible and medicinal values. There are ∼18 species and seven varieties of hawthorn in China distributed throughout the country. We now report the chloroplast genome sequences from C. scabrifolia, C. chungtienensis and C. oresbia, from the southwest of China and compare them with the previously released six species in Crataegus and four species in Rosaceae. The chloroplast genome structure of Crataegus is typical and can be divided into four parts. The genome sizes are between 159,654 and 159,898bp. The three newly sequenced chloroplast genomes encode 132 genes, including 85 protein-coding genes, 37 tRNA genes, and eight rRNA genes. Comparative analysis of the chloroplast genomes revealed six divergent hotspot regions, including ndhA, rps16-trnQ-UUG, ndhF-rpl32, rps16-psbK, trnR-UCU-atpA and rpl32-trnL-UAG. According to the correlation and co-occurrence analysis of repeats with indels and SNPs, the relationship between them cannot be ignored. The phylogenetic tree constructed based on the complete chloroplast genome and intergenic region sequences indicated that C. scabrifolia has a different origin from C. chungtienensis and C. oresbia. We support the placement of C. hupehensis, C. cuneata, C. scabrifolia in C. subg. Crataegus and C. kansuensis, C. oresbia, C. kansuensis in C. subg. Sanguineae. In addition, based on the morphology, geographic distribution and phylogenetic relationships of C. chungtienensis and C. oresbia, we speculate that these two species may be the same species. In conclusion, this study has enriched the chloroplast genome resources of Crataegus and provided valuable information for the phylogeny and species identification of this genus.

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“…Malus micromalus Makino, Rosaceae apple, a rare fruit found only in China, is an important contributor to food production and nutrition [1]. The trees are distributed in the area of Fugu county in the city of Yulin, in the areas of Hequ, Pianguan, and Baode in Shanxi province, and in Jungar Banner of inner Mongolia [2].…”

Section: Introductionmentioning

confidence: 99%

Comparative Analysis of Non-Destructive Prediction Model of Soluble Solids Content for Malus micromalus Makino Based on Near-Infrared Spectroscopy

Gao

Wang

Guo³

et al. 2019

IEEE Access

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To investigate the feasibility of using near-infrared (NIR) spectral technology to detect the soluble solids content (SSC) of Malus micromalus Makino, rapid and non-destructive prediction models of SSC were studied using least-square support vector regression (LS-SVR), partial least squares regression (PLSR), and the error back propagation artificial neural network (BP-ANN). First, 110 samples of NIR diffuse reflectance spectra in the wavelength range of 400.41-1083.89 nm were obtained, and then were divided into the calibration set and prediction set by sample set partitioning based on the joint x-y distance (SPXY) algorithm. Second, we compared the prediction performance of the PLSR model after preprocessing by nine spectral preprocessing methods, and applied data dimension reduction methods (random frog, the successive projections algorithm (SPA), and principal component analysis) for variable selection. Finally, the effect of applying full spectrum and characteristic spectrum modeling on SSC prediction accuracy was compared and analyzed. The comparison studies confirmed that the optimal fusion model of SPA-LS-SVR had the best performance (R C = 0.9629, R P = 0.9029, RMSEC = 0.199, RMSEP = 0.271). The experimental results could provide a reference for future development of the internal component analysis system for Malus micromalus Makino based on NIR spectroscopy and its classification system using SSC as the classification standard. INDEX TERMS Least-square support vector regression, Malus micromalus Makino, near-infrared spectroscopy, soluble solids content, successive projection algorithm. The associate editor coordinating the review of this manuscript and approving it for publication was Geng-Ming Jiang. more popular with the local people. It is a good raw material for fruit processing and is rich in soluble solids content (SSC), acids, and calcium. It has been processed into brandy, beverages, pastries, and other products. In recent years, due to its high nutritional and economic value, it has been widely promoted by the local government as a special agricultural product of Fugu Valley to be shipped to all parts of the country and across the world.

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The complete plastid genome of the endangered species midget crabapple (Malus micromalus)

Cited by 5 publications

References 11 publications

The complete chloroplast genome of apple rootstock ‘M9’

The complete chloroplast genome of apple rootstock ‘M9’

Comparative Genomic and Phylogenetic Analysis of Chloroplast Genomes of Hawthorn (Crataegus spp.) in Southwest China

Comparative Analysis of Non-Destructive Prediction Model of Soluble Solids Content for Malus micromalus Makino Based on Near-Infrared Spectroscopy

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