Evolutionary Analysis of JAZ Proteins in Plants: An Approach in Search of the Ancestral Sequence
Abstract
:1. Introduction
2. Results
2.1. Identification of JAZ Protein Family in the Plant Kingdom
2.2. Conserved Motifs and Domains of JAZ Proteins in Land Plants
2.3. Degron Analysis in Land Plants
2.4. Phylogenetic Analysis of JAZ Proteins in Land Plants
2.5. Ancestral Sequences of JAZ Proteins in Land Plants
3. Discussion
4. Materials and Methods
4.1. Bioinformatic Identification of JAZ Proteins
4.2. Structural Analysis of JAZ Protein Domains
4.3. Analysis of Degron Sequences
4.4. Phylogenetic Analysis
4.5. Reconstruction of JAZ Ancestral Sequences
Supplementary Materials
Author Contributions
Funding
Acknowledgments
Conflicts of Interest
References
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Lineage | Organism | Number of Genes | Number of JAZ Genes | Reference |
---|---|---|---|---|
Algae | Chlamydomonas reinhardtii | 17,741 | 0 | [21], this research 1 |
Moss | Physcomitrella patens | 32,926 | 9 | [21], this research |
Liverwort | Marchantia polymorpha | 19,278 | 1 | [14] |
Lycophyte | Selaginella moellendorffii | 22,285 | 8 | [21] |
Gymnosperms | Cycas micholitzii | 28,901 | 2 | This research |
Ginkgo biloba | 30,404 | 7 | This research | |
Gnetum montanum | 32,549 | 2 | This research | |
Picea abies | 66,632 | 30 | This research | |
Picea glauca | 28,909 | 14 | This research | |
Picea sitchensis | 20,434 | 12 | This research | |
Pinus pinaster | 76,426 | 19 | This research | |
Pinus sylvestris | 36,106 | 25 | This research | |
Pinus taeda | 84,446 | 40 | This research | |
Pseudotsuga menziesii | 149,717 | 30 | This research | |
Taxus baccata | 32,062 | 5 | This research | |
Taxus chinensis | Unknown | 9 | [33] | |
Amborellales | Amborella trichopoda | 26,846 | 6 | This research |
Monocots | Spirodela polyrhiza | 19,623 | 7 | This research |
Elaeis guineensis | 29,808 | 14 | This research | |
Ananas comosus | 270,240 | 8 | This research | |
Musa acuminata | 37,582 | 34 | This research | |
Phalaenopsis equestris | 29,431 | 9 | This research | |
Brachypodium distachyon | 34,310 | 17 | [21,34], this research | |
Hordeum vulgare | 25,780 | 8 | This research | |
Oropetium thomaeum | 28,446 | 16 | This research | |
Oryza brachyantha | 34,155 | 9 | This research | |
Oryza sativa | 42,189 | 15 | [19,21] | |
Phyllostachis edulis | 31,978 | 18 | [35] | |
Setaria italica | 34,584 | 18 | This research | |
Sorghum bicolor | 34,211 | 18 | [21], this research | |
Triticum aestivum | 114,581 | 50 | [20],this research | |
Zoysia japonica | 59,271 | 18 | This research | |
Zea mays | 44,474 | 38 | [36], this research | |
Zostera marina | 20,450 | 7 | This research | |
Dicots | Actinidia chinensis | 39,040 | 5 | This research |
Amaranthus hypochondriacus | 23,847 | 8 | This research | |
Beta vulgaris | 26,920 | 7 | This research | |
Chenopodium quinoa | 44,776 | 6 | This research | |
Daucus carota | 32,113 | 10 | This research | |
Arabidopsis lyrata | 31,073 | 13 | This research | |
Arabidopsis thaliana | 69,810 | 13 | [17,22] | |
Brassica oleraceae | 59,225 | 25 | This research | |
Brassica rapa | 40,492 | 28 | This research | |
Capsella rubella | 26,521 | 10 | This research | |
Schrenkiella parvula | 26,313 | 12 | This research | |
Carica papaya | 27,768 | 7 | This research | |
Tarenaya hassleriana | 30,556 | 16 | This research | |
Citrullus lanatus | 597,261 | 10 | This research | |
Erythranthe guttata | 28,140 | 10 | This research | |
Cucumis melo | 28,608 | 10 | This research | |
Cucumis sativus | 21,503 | 11 | This research | |
Hevea brasiliensis | 42,550 | 14 | [37,38], this research | |
Manihot esculenta | 33,033 | 16 | This research | |
Ricinus communis | 31,221 | 9 | This research | |
Arachis ipaensis | 41,840 | 10 | This research | |
Cajanus cajan | 48,680 | 11 | [39] | |
Cicer arietinum | 170,274 | 9 | This research | |
Glycine max | 56,044 | 24 | This research | |
Medicago truncatula | 50,894 | 12 | [21], this research | |
Trifolium pratense | 39,948 | 10 | This research | |
Vigna radiata | 22,368 | 10 | This research | |
Utricularia gibba | 25,930 | 11 | This research | |
Gossypium raimondi | 37,505 | 15 | [40] | |
Theobroma cacao | 29,232 | 8 | This research | |
Corchorus oliotorus | 37,281 | 8 | This research | |
Eucalyptus grandis | 36,349 | 11 | This research | |
Nelumbo nucifera | 26,685 | 9 | This research | |
Ziziphus jujuba | 31,701 | 10 | This research | |
Fragaria vesca | 32,831 | 12 | [18] | |
Malus × domestica | 55,620 | 21 | [41], this research | |
Prunus persica | 26,873 | 12 | [42], this research | |
Pyrus × bretschneideri | 42,812 | 12 | [43], this research | |
Coffea canephora | 469,604 | 7 | This research | |
Citrus clementina | 24,533 | 7 | This research | |
Populus trichocarpa | 42,950 | 13 | [44], this research | |
Capsicum annum | 35,884 | 10 | This research | |
Solanum lycopersicum | 34,725 | 13 | [17], this research | |
Solanum tuberosum | 39,028 | 13 | This research | |
Petunia axillaris | 35,812 | 13 | This research | |
Vitis vinifera | 26,346 | 11 | [21,30] |
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Garrido-Bigotes, A.; Valenzuela-Riffo, F.; Figueroa, C.R. Evolutionary Analysis of JAZ Proteins in Plants: An Approach in Search of the Ancestral Sequence. Int. J. Mol. Sci. 2019, 20, 5060. https://doi.org/10.3390/ijms20205060
Garrido-Bigotes A, Valenzuela-Riffo F, Figueroa CR. Evolutionary Analysis of JAZ Proteins in Plants: An Approach in Search of the Ancestral Sequence. International Journal of Molecular Sciences. 2019; 20(20):5060. https://doi.org/10.3390/ijms20205060
Chicago/Turabian StyleGarrido-Bigotes, Adrián, Felipe Valenzuela-Riffo, and Carlos R. Figueroa. 2019. "Evolutionary Analysis of JAZ Proteins in Plants: An Approach in Search of the Ancestral Sequence" International Journal of Molecular Sciences 20, no. 20: 5060. https://doi.org/10.3390/ijms20205060