Genome-Wide Identification, Characterization, and Expression Profiling of the ECERIFERUM (CER) Gene Family in Ziziphus jujube

Li, N.; Li, X. Z.; Song, Yuqin; Yang, Sheng; Li, L. L.

doi:10.1134/s1021443721050101

Cited by 7 publications

(22 citation statements)

References 24 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…CER is one of the main gene families involved in cuticle wax biosynthesis and stress response (Bourdenx et al, 2011 ). The genome-wide identification of CER family genes has been reported in different plant species including Z. jujuba Mill (Li et al, 2021 ), M. domestica (Qi et al, 2019a ), and H. annuus (Ahmad et al, 2021 ) and has been functionally characterized in A. thaliana (Aarts et al, 1995 ; Hooker et al, 2002 ; Trenkamp et al, 2004 ; Rowland et al, 2007 ; Pascal et al, 2013 ; Kim et al, 2019 ; Yang et al, 2020b ), P. pratensis (Wang et al, 2021 ), O. sativa (Ni et al, 2018 ), B. napus (Wang et al, 2020 ), and Brachypodium distachyon (Wu et al, 2019 ). Information on CER genes in P. edulis remained unknown, but the availability of the passion fruit genome (Ma et al, 2021 ) made it possible studies on genomic levels.…”

Section: Discussionmentioning

confidence: 99%

“…Ahmad et al ( 2021 ) mentioned that the diversity of genes in the same family on different chromosomes may be due to their involvement in various functions. The 34 identified PeCER genes in the passion fruit genome were relatively similar in terms of number to sunflower CER (thirty-seven genes) (Ahmad et al, 2021 ), jujuba CER (twenty-nine) (Li et al, 2021 ), while some species have fewer CER genes including apple, which has 10 CER genes (Qi et al, 2019a ); the difference in gene number may be due to differences in genome size. The phylogenetic tree was constructed among P. edulis, A. thaliana, M. domestica, H. annus , and Z. jujuba proteins and divided into 7 clades according to sunflower CER (Ahmad et al, 2021 ) ( Figure 1A ).…”

Section: Discussionmentioning

confidence: 99%

“…In order to perform the genome-wide identification of CER genes in passion fruit, all known CER family protein sequences of Arabidopsis thaliana (AtCER) were downloaded from The Arabidopsis Information Resource (TAIR) database ( http://www.Arabidopsis.org ), Malus domestica (apple, MdCER) (Qi et al, 2019a ) from the Phytozome database ( https://data.jgi.doe.gov/refine-download/phytozome?organism=Mdomestica&expanded=491 ), and Helianthus annuus (sunflower, HaCER) (Ahmad et al, 2021 ) and Ziziphus jujuba (jujuba, ZjCER) (Li et al, 2021 ) from National Center for Biotechnology Information (NCBI) ( https://www.ncbi.nlm.nih.gov/ ). The passion fruit protein, CDS (coding DNA sequence), gff, and genome sequence files were downloaded from the passion fruit genome ( http://ftp.cngb.org/pub/CNSA/data3/CNP0001287/CNS0275691/CNA0017758/ ) (Ma et al, 2021 ).…”

Section: Methodsmentioning

confidence: 99%

“…Eceriferum ( CER ) genes play an important role in VLCFAs and wax biosynthesis pathways, and have been thoroughly investigated in numerous plant species (Li et al, 2021 ). The first member, the CER1 gene, was molecularly characterized in Arabidopsis ( AtCER1 ) and was discovered to be responsible for the conversion of ultra-long-chain aldehydes into ultra-long-chain alkanes and stimulated under biotic and abiotic stresses (Aarts et al, 1995 ; Wang et al, 2021 ).…”

Section: Introductionmentioning

confidence: 99%

“…The CER gene family has been identified in different plant species including 29 CER family members in jujuba ( Ziziphus jujuba Mill.) (Li et al, 2021 ), 10 CER family members in apple ( Malus domestica ) (Qi et al, 2019a ), and 37 CER family members in sunflower ( Helianthus annuus ) (Ahmad et al, 2021 ). However, the CER gene family has not been identified in passion fruit ( Passiflora edulis ).…”

Section: Introductionmentioning

confidence: 99%

See 4 more Smart Citations

Comprehensive Genome-Wide Identification and Expression Profiling of Eceriferum (CER) Gene Family in Passion Fruit (Passiflora edulis) Under Fusarium kyushuense and Drought Stress Conditions

Rizwan

Waheed

et al. 2022

Front. Plant Sci.

View full text Add to dashboard Cite

Plant surfaces are covered with cuticle wax and are the first barrier between a plant and environmental stresses. Eceriferum (CER) is an important gene family involved in wax biosynthesis and stress resistance. In this study, for the first time, 34 CER genes were identified in the passion fruit (Passiflora edulis) genome, and PeCER proteins varied in physicochemical properties. A phylogenetic tree was constructed and divided into seven clades to identify the evolutionary relationship with other plant species. Gene structure analyses revealed that conserved motifs ranged from 1 to 24, and that exons ranged from 1 to 29. The cis-element analysis provides insight into possible roles of PeCER genes in plant growth, development and stress responses. The syntenic analysis revealed that segmental (six gene pairs) and tandem (six gene pairs) gene duplication played an important role in the expansion of PeCER genes and underwent a strong purifying selection. In addition, 12 putative ped-miRNAs were identified to be targeting 16 PeCER genes, and PeCER6 was the most targeted by four miRNAs including ped-miR157a-5p, ped-miR164b-5p, ped-miR319b, and ped-miR319l. Potential transcription factors (TFs) such as ERF, AP2, MYB, and bZIP were predicted and visualized in a TF regulatory network interacting with PeCER genes. GO and KEGG annotation analysis revealed that PeCER genes were highly related to fatty acid, cutin, and wax biosynthesis, plant-pathogen interactions, and stress response pathways. The hypothesis that most PeCER proteins were predicted to localize to the plasma membrane was validated by transient expression assays of PeCER32 protein in onion epidermal cells. qRT-PCR expression results showed that most of the PeCER genes including PeCER1, PeCER11, PeCER15, PeCER17, and PeCER32 were upregulated under drought and Fusarium kyushuense stress conditions compared to controls. These findings provide a foundation for further studies on functions of PeCER genes to further facilitate the genetic modification of passion fruit wax biosynthesis and stress resistance.

show abstract

Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 3 more Smart Citations

Comprehensive Genome-Wide Identification and Expression Profiling of Eceriferum (CER) Gene Family in Passion Fruit (Passiflora edulis) Under Fusarium kyushuense and Drought Stress Conditions

Rizwan

Waheed

et al. 2022

Front. Plant Sci.

View full text Add to dashboard Cite

show abstract

Insights into the evolution of the eucalypt CER1 and CER3 genes involved in the synthesis of alkane waxes

Hernández,

Vaillancourt,

Potts

et al. 2024

Tree Genetics & Genomes

View full text Add to dashboard Cite

The genes ECERIFERUM1 (CER1) and ECERIFERUM3 (CER3) encode the biosynthesis of alkane waxes, a key component of the plant cuticle. To study the evolution of CER1 and CER3 in a highly diverse group of eucalypts, we performed a genome-wide survey using recently released genome assemblies of 28 Myrtaceae species, with 22 species from the main eucalypt lineage and 6 non-eucalypt Myrtaceae tree species. We manually annotated 250 genes and pseudogenes, identifying a near-ubiquitous single copy of CER3 and 2 to 10 CER1 gene copies per Myrtaceae species. Phylogenetic analysis suggested that copy number variation in eucalypts is due to multiple tandem duplication events, both ancient (shared by all Myrtaceae species studied) and relatively recent (present only in eucalypts). Inter-chromosomal translocations were discovered for both CER1 and CER3, along with recurrent loss of often the same CER1 introns in the WAX2 domain, the domain that is essential for wax production. Despite the varied environments occupied by the eucalypt species in this study, we did not find statistically significant associations between intra-genic structural changes or CER1 copy number and aspects of the environment they occupy (including aridity). The challenge is now to explain the species-specific evolutionary histories that contributed to the observed variation in CER1 and the extent to which it may contribute to the adaptability of eucalypts.

show abstract

Decoding drought resilience: a comprehensive exploration of the cotton Eceriferum (CER) gene family and its role in stress adaptation

Hamid,

Ghorbanzadeh,

Jacob

et al. 2024

BMC Plant Biol

View full text Add to dashboard Cite

Background The cuticular wax serves as a primary barrier that protects plants from environmental stresses. The Eceriferum (CER) gene family is associated with wax production and stress resistance. Results In a genome-wide identification study, a total of 52 members of the CER family were discovered in four Gossypium species: G. arboreum, G. barbadense, G. raimondii, and G. hirsutum. There were variations in the physicochemical characteristics of the Gossypium CER (GCER) proteins. Evolutionary analysis classified the identified GCERs into five groups, with purifying selection emerging as the primary evolutionary force. Gene structure analysis revealed that the number of conserved motifs ranged from 1 to 15, and the number of exons varied from 3 to 13. Closely related GCERs exhibited similar conserved motifs and gene structures. Analyses of chromosomal positions, selection pressure, and collinearity revealed numerous fragment duplications in the GCER genes. Additionally, nine putative ghr-miRNAs targeting seven G. hirsutum CER (GhCER) genes were identified. Among them, three miRNAs, including ghr-miR394, ghr-miR414d, and ghr-miR414f, targeted GhCER09A, representing the most targeted gene. The prediction of transcription factors (TFs) and the visualization of the regulatory TF network revealed interactions with GhCER genes involving ERF, MYB, Dof, bHLH, and bZIP. Analysis of cis-regulatory elements suggests potential associations between the CER gene family of cotton and responses to abiotic stress, light, and other biological processes. Enrichment analysis demonstrated a robust correlation between GhCER genes and pathways associated with cutin biosynthesis, fatty acid biosynthesis, wax production, and stress response. Localization analysis showed that most GCER proteins are localized in the plasma membrane. Transcriptome and quantitative reverse transcription-polymerase chain reaction (qRT-PCR) expression assessments demonstrated that several GhCER genes, including GhCER15D, GhCER04A, GhCER06A, and GhCER12D, exhibited elevated expression levels in response to water deficiency stress compared to control conditions. The functional identification through virus-induced gene silencing (VIGS) highlighted the pivotal role of the GhCER04A gene in enhancing drought resistance by promoting increased tissue water retention. Conclusions This investigation not only provides valuable evidence but also offers novel insights that contribute to a deeper understanding of the roles of GhCER genes in cotton, their role in adaptation to drought and other abiotic stress and their potential applications for cotton improvement.

show abstract

Genome-Wide Identification, Characterization, and Expression Profiling of the ECERIFERUM (CER) Gene Family in Ziziphus jujube

Cited by 7 publications

References 24 publications

Comprehensive Genome-Wide Identification and Expression Profiling of Eceriferum (CER) Gene Family in Passion Fruit (Passiflora edulis) Under Fusarium kyushuense and Drought Stress Conditions

Comprehensive Genome-Wide Identification and Expression Profiling of Eceriferum (CER) Gene Family in Passion Fruit (Passiflora edulis) Under Fusarium kyushuense and Drought Stress Conditions

Insights into the evolution of the eucalypt CER1 and CER3 genes involved in the synthesis of alkane waxes

Decoding drought resilience: a comprehensive exploration of the cotton Eceriferum (CER) gene family and its role in stress adaptation

Contact Info

Product

Resources

About