Large-scale phylogenetic analysis of Amorphophallus (Araceae) derived from nuclear and plastid sequences reveals new subgeneric delineation

Yang

et al. 2019

Sci Rep

Amorphophallus (Araceae) contains more than 170 species that are mainly distributed in Asia and Africa. Because the bulbs of Amorphophallus are rich in glucomannan, they have been widely used in food, medicine, the chemical industry and so on. To better understand the evolutionary relationships and mutation patterns in the chloroplast genome of Amorphophallus, the complete chloroplast genomes of four species were sequenced. The chloroplast genome sequences of A. albus, A. bulbifer, A. konjac and A. muelleri ranged from 162,853 bp to 167,424 bp. The A. albus chloroplast (cp) genome contains 113 genes, including 79 protein-coding genes, 30 tRNA genes and 4 rRNA genes. The A. bulbifer cp genome contains 111 genes, including 78 protein-coding genes, 29 tRNA genes and 4 rRNA genes. A. muelleri contains 111 and 113 genes, comprising 78 and 80 protein-coding genes, respectively, 29 tRNA genes and 4 rRNA genes. The IR (inverted repeat) region/LSC (long single copy) region and IR/SSC (short single copy) region borders of the four Amorphophallus cp genomes were compared. In addition to some genes being deleted, variations in the copy numbers and intron numbers existed in some genes in the four cp genomes. One hundred thirty-four to 164 SSRs (simple sequence repeats) were detected in the four cp genomes. In addition, the highest mononucleotide SSRs were composed of A and T repeat units, and the majority of dinucleotides were composed of AT and TA. SNPs (single nucleotide polymorphisms) and indels (insertion-deletions) were calculated from coding genes and noncoding genes, respectively. These divergences comprising SSRs, SNPs and indel markers will be useful in testing the maternal inheritance of the chloroplast genome, identifying species differentiation and even in breeding programs. Furthermore, the regression of ndhK was detected from four Amorphophallus cp genomes in our study. Complete cp genome sequences of four Amorphophallus species and other plants were used to perform phylogenetic analyses. The results showed that Amorphophallus was clustered in Araceae, and Amorphophallus was divided into two clades; A. albus and A. konjac were clustered in one clade, and A. bulbifer and A. muelleri were clustered in another clade. Phylogenetic analysis among the Amorphophallus genus was conducted based on matK and rbcL. The phylogenetic trees showed that the relationships among the Amorphophallus species were consistent with their geographical locations. The complete chloroplast genome sequence information for the four Amorphophallus species will be helpful for elucidating Amorphophallus phylogenetic relationships.

Section: Introductionmentioning

confidence: 99%

Comparative analysis of complete chloroplast genome sequences of four major Amorphophallus species

Yang

et al. 2019

Sci Rep

Nordic Journal of Botany

“…Like all of the Amorphophallus species in the Philippines, A. minimus is treated as a member of subg. Amorphophallus (Claudel et al 2017). The appendix of most Amorphophallus species is smooth and acuminate; however, the clavate and colliculate appendix is a unique and striking combination that makes A. minimus easy to distinguish from all other currently described Amorphophallus species.…”

Section: Taxonomic Treatmentmentioning

confidence: 99%

Amorphophallus minimus (Araceae), a new species from the montane forest of Nueva Ecija, Luzon island, Philippines

Bustamante¹,

Claudel

Altomonte

et al. 2021

Self Cite

Amorphophallus minimus (Araceae) is herein described and illustrated as a new species from the montane forest of Nueva Ecija, Luzon island, Philippines. A. minimus has an overall resemblance to Amorphophallus palawanensis Bogner and Hett., however, it is easily distinguished by having a club‐shaped and colliculate appendix that is contiguous with the male zone, oblate stamens (2 per flower), presence of leaf bulbils, and its overall small dimensions. Amorphophallus minimus is currently the only species in the Philippines found to inhabit a montane forest ecosystem.

“…Subsequently, working groups of systematists have applied the results of phylogenetic analyses to revise infrafamilial classifications (e.g. Schneider et al 2014;Bone et al 2015;Chacón et al 2016;Claudel et al 2017;De Faria et al 2017;Simões & Staples 2017), an endeavour that is still ongoing. Systematists have spent great effort in revising the classification of angiosperms because of the awareness that phylogenetics has brought methodological rigour to systematics and predictivity to classifications, which enabled the treatment of phylogenetic relationships -and therefore of classifications -as testable hypotheses, rather than opinions of scientists, however scholarly they might be.…”

Section: Introductionmentioning

confidence: 99%

“… 2016 ; Claudel et al . 2017 ; De Faria et al . 2017 ; Simões & Staples 2017 ), an endeavour that is still ongoing.…”

Section: Introductionmentioning

confidence: 99%

A linear sequence to facilitate curation of herbarium specimens of Annonaceae

et al. 2018

Self Cite