The complete chloroplast genomes of two cold hardness coffee trees, Coffea arabica L. (Rubiaceae)

Abstract

We presented two complete chloroplast genomes of cold resistance coffee trees (Coffea arabica L.), named as CH1 and CH2 cultivated in Jeju island, Korea. Their length is 155,187 bp long (GC ratio is 37.4%) and has four subregions: 85,160 bp of large single copy (LSC; 35.4%) and 18,135 bp of small single copy (SSC; 31.3%) regions are separated by 25,946 bp of inverted repeat (IR; 43.0%) regions including 131 genes (86 protein-coding genes, eight rRNAs, and 37 tRNAs). Like sequenced coffee chloroplast genomes, number of sequence variations of CH1 and CH2 against TY1 chloroplast genomes are zero and two, respectively.

The complete mitochondrial genome of Cervus canadensis (Erxleben, 1777), as a model species of Chronic Wasting Disease (CWD)

“…The mitochondrial genome of C. canadensis (GenBank accession is MT534583) is 16,428 bp and contains 37 genes (13 protein-coding genes, two rRNAs, and 22 tRNAs) and GC ratio is 38.0%. It is identical to the first mitochondrial genome of C. cnadensis nannodes (MT430939; Kim et al 2020), which is similar to the cases of insect mitochondrial genome of Laodelphax striatellus (one SNP) (Seo et al 2019) as well as chloroplast genomes of Salix koriyanagi , Populus alba  Populus glandulosa , and Coffea arabica (Park et al 2020). It indicates that susceptibility of the CWD may not related to mitochondrial genomic elements.…”

“… 2019 ), and Coffea arabica (Park et al. 2020 ). It indicates that susceptibility of the CWD may not related to mitochondrial genomic elements.…”

The Complete Chloroplast Genome of Arabidopsis thaliana Isolated in Korea (Brassicaceae): An Investigation of Intraspecific Variations of the Chloroplast Genome of Korean A. thaliana

“…This is also caused by the inserted region of the Tsu0 chloroplast genome. Other plant chloroplasts of which intraspecific variations of the GC contents are identical to those of A. thaliana are Goodyera schlechtendaliana (37.1% and 37.2%) [ 53 – 55 ] and Gastrodia elata (26.7% and 26.8%) [ 56 – 58 ] which are same to those of Arabidopsis thaliana , while Coffea arabica [ 50 , 59 – 63 ], Viburnum erosum [ 64 , 65 ], Duchesnea chrysantha [ 20 , 21 ], Salix koriyanagi [ 66 , 67 ], Pseudostellaria palibiniana [ 23 , 25 ], and Pyrus ussuriensis [ 68 , 69 ] present no difference in the intraspecific GC contents.…”

“…Several intraspecific phylogenetic relations of plant species using whole chloroplast genomes have been studied, including Aconitum coreanum , showing small branches of three individuals with high bootstrap values from both ML and NJ methods from mid-level of sequence variations [ 89 ]; G. schlechtendaliana , displaying branches of each samples caused by a sufficient number of sequence variations with high bootstraps in both methods [ 53 , 54 ]; Abeliophyllum distichum , indicating partial support of intraspecific individuals from both methods [ 90 – 92 ]; and Coffea arabica , showing high bootstrap values from both methods with no branch of either individual sequences due to the low level of sequence variations [ 50 , 59 – 63 ]. All these results differ from that of A. thaliana , presenting a different clade structure from the phylogenetic trees constructed by three methods ( Figure 7 ).…”