The complete chloroplast genome of <i>Agave amaniensis</i> (Asparagales: Asparagaceae: Agavoideae)

Xu, Bochao; Tan, Shibei; Xu, Qi; Xing, Huang; Xi, Jingen; Chen, Helong; Qin, Jianfeng; Chen, Tao; Yi, Kexian

doi:10.1080/23802359.2022.2109440

Cited by 6 publications

(5 citation statements)

References 11 publications

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“…The topology of the tree is confirmed also, as it corresponds to the recent work with Agave species (Xu et al. 2022 ) where A. attenuate and M. virginica formed a separate branch from the other Agave species (76% BS). In the present work, the ML tree isolate M. virginica (100% BS) to A. attenuate by incorporating A. durangensis into the analysis, the support values are strong to resolve the separation of the nodes.…”

Section: Discussionsupporting

confidence: 83%

Characterization of the complete chloroplast genome sequence of Agave durangensis (Asparagales: Asparagaceae: Agavoideae)

González-Trillo,

Reyes López,

Almaraz-Abarca

et al. 2024

Mitochondrial DNA Part B

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Agave durangensis commonly known as agave cenizo, is an endemic Agave species in Mexico used for mescal production, yet its taxonomic delimitation is still controversial. This study aimed to enhance taxonomic clarity by characterizing its chloroplast genome. Chloroplast DNA was isolated from 2-year-old A. durangensis leaves. The complete chloroplast genome size was 156,441 bp, comprising a large single-copy region (LSC), a pair of inverted repeat regions (IR), and a small single-copy region (SSC). Annotation revealed 87 protein-coding genes, 38 tRNAs, and 8 rRNAs, with notable gene inversions. Phylogenetic analysis suggests, A. durangensis forms a separate lineage within the Agave genus.

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Section: Discussionsupporting

confidence: 83%

Characterization of the complete chloroplast genome sequence of Agave durangensis (Asparagales: Asparagaceae: Agavoideae)

González-Trillo,

Reyes López,

Almaraz-Abarca

et al. 2024

Mitochondrial DNA Part B

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“…The 5S rDNA locate proximally on a small submetacentric chromosome and the 35S rDNA is located in the secondary constriction of a large acrocentric chromosome, as observed for A. angustifolia and other Agave species [26,31]. Phylogenetically, A. angustifolia and A. amaniensis are closely related to each other and to A. americana, and the position of the hybrid H11648 in the same clade corroborates its known origin [32,33].…”

Section: Introductionsupporting

confidence: 67%

Differential Repeat Accumulation in the Bimodal Karyotype of Agave L.

Ramos

Báez

Fuchs

et al. 2023

Genes

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The genus Agave presents a bimodal karyotype with x = 30 (5L, large, +25S, small chromosomes). Bimodality within this genus is generally attributed to allopolyploidy in the ancestral form of Agavoideae. However, alternative mechanisms, such as the preferential accumulation of repetitive elements at the macrochromosomes, could also be important. Aiming to understand the role of repetitive DNA within the bimodal karyotype of Agave, genomic DNA from the commercial hybrid 11648 (2n = 2x = 60, 6.31 Gbp) was sequenced at low coverage, and the repetitive fraction was characterized. In silico analysis showed that ~67.6% of the genome is mainly composed of different LTR retrotransposon lineages and one satellite DNA family (AgSAT171). The satellite DNA localized at the centromeric regions of all chromosomes; however, stronger signals were observed for 20 of the macro- and microchromosomes. All transposable elements showed a dispersed distribution, but not uniform across the length of the chromosomes. Different distribution patterns were observed for different TE lineages, with larger accumulation at the macrochromosomes. The data indicate the differential accumulation of LTR retrotransposon lineages at the macrochromosomes, probably contributing to the bimodality. Nevertheless, the differential accumulation of the satDNA in one group of macro- and microchromosomes possibly reflects the hybrid origin of this Agave accession.

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“…IAC4 may be a remnant line of the IAC hybridization experiments conducted in 1958 (Salgado et al, 1979). Also, A. amaniensis is diploid (2n = 60) unlike A. sisalana (Doughty, 1936;Queiroz et al, 2012), and recent chloroplast analysis has also shown that these two species are not the same (Xu et al, 2022). From a morphophysiological perspective, the IAC1, IAC3, and IAC4 samples showed contrasting behaviors when compared to A. sisalana, particularly in terms of chlorophyll content (Figure 6B).…”

Section: Using Mayahuelin To Trace the History Of Agave Accessions In...mentioning

confidence: 93%

“…Perhaps this is an indicative that Sisalanae might be related to the A. americana group. Xu et al (2022) used a limited set of chloroplast genomes and also found H11648 to be close to A. americana. Except for the fact that it is a thornless plant (Gentry, 1982), there is hardly any information available about the A. angustifolia used to generate H11648.…”

Section: Using Mayahuelin To Trace the History Of Agave Accessions In...mentioning

confidence: 99%

Rescuing the Brazilian Agave breeding program: morphophysiological and molecular characterization of a new germplasm

Raya,

de Carvalho,

José

et al. 2023

Front. Chem. Eng.

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Agaves have been a valuable resource in dryland areas for centuries, providing fibers (sisal), food, and beverages. However, the advent of synthetic fibers has led to a decrease in research on Agave, resulting in the cessation of breeding programs in Brazil. With the rise of climate change, there is renewed interest in Agave for its potential as a biofuel feedstock in semiarid regions. Since 2016, we have been collecting Agave accessions throughout the country and retrieving what is left of Brazil’s original breeding program to establish a new germplasm bank. Here, we evaluated 21 of those accessions growing in the field. We used molecular markers and morphophysiological traits to characterize the plants. Based on the Mayahuelin molecular marker, we were able to reconstruct a phylogeny for the Brazilian accessions. The morphophysiological traits explained 34.6% of the phenotypic variation in the dataset, with physiological traits such as leaf water content, effective quantum efficiency of photosystem II (ΦPSII), and specific leaf mass (SLM) as the most significant traits. Specifically, we evaluated nine Agave species and found that the physiological traits, rather than the morphological ones, were the most significant. Leaf water content was negatively correlated with specific leaf mass, which could be used as a marker for selecting cultivars with higher biomass accumulation. Interestingly, ΦPSII and chlorophyll content were negatively correlated, suggesting photochemical adaptations throughout the rosette. Molecular and phenotypic data suggest that A. amaniensis, which is frequently considered a synonym of A. sisalana, is effectively another species. Overall, this study provides valuable information on the physiological traits of Brazilian Agave accessions and is a starting point for selecting more productive and climate-resilient cultivars for biorenewables production.

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The complete chloroplast genome of Agave amaniensis (Asparagales: Asparagaceae: Agavoideae)

Cited by 6 publications

References 11 publications

Characterization of the complete chloroplast genome sequence of Agave durangensis (Asparagales: Asparagaceae: Agavoideae)

Characterization of the complete chloroplast genome sequence of Agave durangensis (Asparagales: Asparagaceae: Agavoideae)

Differential Repeat Accumulation in the Bimodal Karyotype of Agave L.

Rescuing the Brazilian Agave breeding program: morphophysiological and molecular characterization of a new germplasm

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