2.6. Phylogenetic analysis.
Phylogenetic analysis was performed using MEGA X (Kumar et al., 2018)
that relies on the Maximum Likelihood method and JTT matrix-based model.
The trees with the highest log likelihood (A: -11895.94, B: -7003.22, C:
-18522.86) are shown. The tree was obtained applying Neighbor-Join and
BioNJ algorithms to a matrix of pairwise distances estimated using a JTT
model, and then selecting the topology with superior log likelihood
value (Jones et al., 1992). These analysis involved (A: 8, B: 8, C: 20)
amino acid sequences respectively. There were a total (A: 1124, B: 947,
C: 752) positions respectively in the final dataset. Phylogenetic tree
analysis for SPS and SS orthologues was performed usingArabidopsis protein sequences, selecting only the closest ones
between both species without analyzing the furthest clusters. Regarding
invertases, the phylogenetic tree performed for CWINV orthologues was
using protein sequences with 6-FEH activity from Arabidopsis :
AtCWINV1 (At3G13790), AtCWINV3 (At1G55120), AtCWINV5 (At3G13784) andBeta vulgaris : Bv6-FEH (AJ508534); 1-FEH activity fromCichorium intybus Ci1-FEH (AJ242538), Ci1-FEH2a (AJ295033); and
6-1-FEH activity from Arabidopsis AtCWINV6 (At5G11920) andTriticum aestivum Ta6-1-FEH (AB089269). For VINV orthologues was
using the closest protein sequences from Arabidopsis : AtVI2
(AT1G12240), AtVI1 (AT1G62660); protein sequences with 1-SST activity
from Allium cepa : Ac1-SST (AJ006066), Cichorium intybus :
Ci1-SST (U81520), Helianthus tuberosus Ht1-SST (AJ009757); and
protein sequences with 6-GFT activity from Allium cepa : Ac6-GFT
(ACY07838) and Asparagus officinalis Ao6-GFT (AB084283).
Accession numbers used for all analyses are according to the following
databases nomenclature respectively (gene_V4, gene_V2, NCBI_LOC,
NCBI_PROT) (Supplemental Information S1).