The complete chloroplast genome of <i>Neolamarckia macrophylla</i> (Rubiaceae)

Shi, Shi; Larekeng, Siti Halimah; Lv, Pei; Nie, Yuying; Restu, Muhammad; Yang, Haijun

doi:10.1080/23802359.2020.1745709

Cited by 6 publications

(2 citation statements)

References 7 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Within Rubiaceae, it was possible to obtain the resolution of the three subfamilies as proposed by Bremer and Eriksson 1 and as shown in the comparative analysis of the organellar genomes of Rubiaceae 40 , 41 , 47 , 75 .…”

Section: Discussionmentioning

confidence: 99%

Chloroplast genome characterization of Uncaria guianensis and Uncaria tomentosa and evolutive dynamics of the Cinchonoideae subfamily

Castro

Nunes

Carvalho

et al. 2023

Sci Rep

View full text Add to dashboard Cite

Uncaria species are used in traditional medicine and are considered of high therapeutic value and economic importance. This work describes the assembly and annotation of the chloroplast genomes of U. guianensis and U. tomentosa, as well as a comparative analysis. The genomes were sequenced on MiSeq Illumina, assembled with NovoPlasty, and annotated using CHLOROBOX GeSeq. Addictionaly, comparative analysis were performed with six species from NCBI databases and primers were designed in Primer3 for hypervariable regions based on the consensus sequence of 16 species of the Rubiaceae family and validated on an in-silico PCR in OpenPrimeR. The genome size of U. guianensis and U. tomentosa was 155,505 bp and 156,390 bp, respectively. Both Species have 131 genes and GC content of 37.50%. The regions rpl32-ccsA, ycf1, and ndhF-ccsA showed the three highest values of nucleotide diversity within the species of the Rubiaceae family and within the Uncaria genus, these regions were trnH-psbA, psbM-trnY, and rps16-psbK. Our results indicates that the primer of the region ndhA had an amplification success for all species tested and can be promising for usage in the Rubiaceae family. The phylogenetic analysis recovered a congruent topology to APG IV. The gene content and the chloroplast genome structure of the analyzed species are conserved and most of the genes are under negative selection. We provide the cpDNA of Neotropical Uncaria species, an important genomic resource for evolutionary studies of the group.

show abstract

Section: Discussionmentioning

confidence: 99%

Chloroplast genome characterization of Uncaria guianensis and Uncaria tomentosa and evolutive dynamics of the Cinchonoideae subfamily

Castro

Nunes

Carvalho

et al. 2023

Sci Rep

View full text Add to dashboard Cite

show abstract

“…Bosser), as a potential species of wood-producing plant, has a limited natural distribution. The distribution of jabon merah covers the Central -Eastern part of Indonesia, including in Sulawesi, Maluku, North Maluku and Papua [1,2]. With a high development potency and a limited distribution area, there is a possible risk of decreasing genetic variation which have a major impact on the sustainability of the species.…”

Section: Introductionmentioning

confidence: 99%

Effect of gamma iradiated seeds of Jabon Merah (Neolamarckia macrophylla (Wall.) Bosser) to genetic diversity

Larekeng

Rachmat

Iswanto

et al. 2022

IOP Conf. Ser.: Earth Environ. Sci.

View full text Add to dashboard Cite

Jabon merah (Neolamarckia macrophylla (Wall.) as one of the potential industrial forest plantations to meet the need for wood that has a moderate level of genetic diversity. This study aims to analyze the morphological and genetic characters and analyze the stability of genes in explants from red jabon seeds induced by gamma rays at doses of 0 gray, 5 gray, 10 gray, 15 gray, 30 gray, 45 gray and 60 gray, 75 gray, 90 gray, 120 gray and 240 gray. The induced seeds were cultured in vitro. The subculture was started with an initialization on MS0 medium and repeatedly cultured. Finally, the LD50 value was determined using curve fit analysis, explant morphological analysis with SPSS, genetic analysis of explants using RAPD markers and SSR/Microsatellite. The DNA analysis with 9 SSR/Microsatellite and RAPD marker primers showed that most of the induction doses produced more fragments than the control.

show abstract