Sex-specific polymorphism of MET1 and ARR17 genes in Populus × sibirica

Melnikova, N. V.; Kudryavtseva, Anna V.; Borkhert, Elena V.; Pushkova, Elena N.; Fedorova, Maria S.; Snezhkina, Anastasiya V.; Krasnov, George S.; Dmitriev, Alexey A.

doi:10.1016/j.biochi.2019.03.018

Cited by 18 publications

(21 citation statements)

References 44 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…More interesting, we also identified three copies of the gene encoding a type A cytokinin response regulator ( RR ) in the W-specific region ( Fig. 3A ), the ortholog of which has also been identified to be associated with sex determination in poplar and willow (Geraldes et al , 2015; Bräutigam et al , 2017; Melnikova et al , 2019; Zhou et al , 2020). Very little sequence differences were found among these three copies, and combined with the fact that the ortholog of the RR gene is located at the distal end of chromosome 19 in P. trichocarpa and P. euphratica ( Fig.…”

Section: Resultsmentioning

confidence: 75%

“…Our recent study on the W chromosome of S. purpurea showed intriguing palindromic structures, in which four copies of the gene encoding a type A cytokinin response regulator ( RR ) were identified (Zhou et al , 2020). Interestingly, the ortholog of this gene has also been reported to be associated with sex in Populus from section Tacamahaca (Geraldes et al , 2015; Bräutigam et al , 2017; Melnikova et al , 2019), which increases the possibility that this gene is an excellent candidate for a common sex determination mechanism in the Salicaceae. However, it is still unclear whether this candidate gene is present in all of these SDRs.…”

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

A general model to explain repeated turnovers of sex determination in the Salicaceae

Yang

Zhang

Wang

et al. 2020

Preprint

View full text Add to dashboard Cite

0Dioecy, the presence of separate sexes on distinct individuals, has evolved repeatedly 3 1 in multiple plant lineages. However, the specific mechanisms through which sex 3 2 systems evolve and their commonalities among plant species remain poorly 3 3 understood. With both XY and ZW sex systems, the family Salicaceae provides a 3 4 system to uncover the evolutionary forces driving sex chromosome turnovers. In this 3 5 study, we performed a genome-wide association study to characterize sex 3 6 determination in two Populus species, P. euphratica and P. alba. Our results reveal an 3 7XY system of sex determination on chromosome 14 of P. euphratica, and a ZW 3 8 system on chromosome 19 of P. alba. We further assembled the corresponding sex 3 9 determination regions, and found that their sex chromosome turnovers may be driven 4 0 by the repeated translocations of a Helitron-like transposon. During the translocation, 4 1 this factor may have captured partial or intact sequences that are orthologous to a 4 2 type-A cytokinin response regulator gene. Based on results from this and other 4 3recently published studies, we hypothesize that this gene may act as a master regulator 4 4 of sex determination for the entire family. We propose a general model to explain how 4 5 the XY and ZW sex systems in this family can be determined by the same RR gene. 6Our study provides new insights into the diversification of incipient sex chromosome 4 7 in flowering plants by showing how transposition and rearrangement of a single gene 4 8 can control sex in both XY and ZW systems. 4 9 5 0

show abstract

Section: Resultsmentioning

confidence: 75%

Section: Introductionmentioning

confidence: 99%

A general model to explain repeated turnovers of sex determination in the Salicaceae

Yang

Zhang

Wang

et al. 2020

Preprint

View full text Add to dashboard Cite

show abstract

“…Note that this gene was originally designated PtRR11 , but it is referred to as RR9 in subsequent publications [43–45], so we will adopt that nomenclature here to avoid confusion. PtRR9 is expressed primarily in reproductive tissues in Populus [42, 45], and is also associated with sex in several Populus species [22,43,44]. Further supporting its possible role in sex determination, it was the only gene in the P. balsamifera genome that showed clear sex-specific differences in promoter and gene body methylation [43].…”

Section: Discussionmentioning

confidence: 99%

A Willow Sex Chromosome Reveals Convergent Evolution of Complex Palindromic Repeats

Zhou

Macaya‐Sanz

Carlson

et al. 2019

Preprint

View full text Add to dashboard Cite

1 Background 2 Sex chromosomes in a wide variety of species share common characteristics, including the 3 presence of suppressed recombination surrounding sex determination loci. They have arisen 4 independently in numerous lineages, providing a conclusive example of convergent evolution. 5Mammalian sex chromosomes contain multiple palindromic repeats across the non-recombining 6 region that facilitate sequence conservation through gene conversion, and contain genes that are 7 crucial for sexual reproduction. Plant sex chromosomes are less well understood, and in 8 particular it is not clear how coding sequence conservation is maintained in the absence of 9 homologous recombination. 10 Results 11 Here we present the first evidence of large palindromic structures in a plant sex chromosome, 12 based on a highly contiguous assembly of the W chromosome of the dioecious shrub Salix 13 purpurea. Two consecutive palindromes span over a region of 200 kb, with conspicuous 20 kb 14 stretches of highly conserved sequences among the four arms. The closely-related species S. 15 suchowensis also has two copies of a portion of the palindrome arm and provides strong 16 evidence for gene conversion. Four genes in the palindrome are homologous to genes in the SDR 17 of the closely-related genus Populus, which is located on a different chromosome. These genes 18 show distinct, floral-biased expression patterns compared to paralogous copies on autosomes.19 Conclusion 20The presence of palindromic structures in sex chromosomes of mammals and plants highlights 21 the intrinsic importance of these features in adaptive evolution in the absence of recombination. 22Convergent evolution is driving both the independent establishment of sex chromosomes as well 23 as their fine-scale sequence structure. 24 26 103 297 kb in length lacked mapped markers and could not be placed unambiguously. 104Location of the SDR 105 We repeated sex association analysis with our new assembly with Chr15Z removed. 106Among 54,959 tested SNPs, all 105 significantly sex-associated SNPs were present only on 107 Chr15W (Fig. 1a; Additional File 2: Figure S2a-c), and markers from PARs and other scaffolds 108 in the main genome did not show any sex association (Additional File 2: Figure S2a). The eight 109 top-ranking sex-associated markers were distributed from 7.66 Mb to 8.66 Mb. Sex-associated 110 markers were primarily heterozygous in females and homozygous in males, confirming our 111 previously-reported observation of ZW sex determination in S. purpurea [18].

show abstract

“…The ARR16 gene has been implicated in gynoecial development in Arabidopsis [49]. PtRR9 is expressed primarily in reproductive tissues in Populus [47,48] and is also associated with sex in several Populus species [24,45,46]. Further supporting its possible role in sex determination, it was the only gene in the P. balsamifera genome that showed clear sex-specific differences in promoter and gene body methylation [45].…”

Section: Sex Chromosome Palindrome Repeatsmentioning

confidence: 96%

“…Support for this hypothesis is provided by the type A cytokinin response regulator homologs that occur in palindrome arms 1,2,3a, and 4a (Table 3), which show strong evidence of ongoing gene conversion and femalespecific expression in S. purpurea. The best ortholog of these genes in P. trichocarpa is Potri.019G133600 (this gene was originally designated PtRR11, but it is referred to as RR9 in subsequent publications [45][46][47], so we will adopt that nomenclature here to avoid confusion). PtRR9 grouped with the Arabidopsis thaliana type A response regulators ARR16 and ARR17 in the original phylogenetic analysis of this family in Populus [48].…”

Section: Sex Chromosome Palindrome Repeatsmentioning

confidence: 99%

A willow sex chromosome reveals convergent evolution of complex palindromic repeats

et al. 2020

View full text Add to dashboard Cite

Background: Sex chromosomes have arisen independently in a wide variety of species, yet they share common characteristics, including the presence of suppressed recombination surrounding sex determination loci. Mammalian sex chromosomes contain multiple palindromic repeats across the non-recombining region that show sequence conservation through gene conversion and contain genes that are crucial for sexual reproduction. In plants, it is not clear if palindromic repeats play a role in maintaining sequence conservation in the absence of homologous recombination. Results: Here we present the first evidence of large palindromic structures in a plant sex chromosome, based on a highly contiguous assembly of the W chromosome of the dioecious shrub Salix purpurea. The W chromosome has an expanded number of genes due to transpositions from autosomes. It also contains two consecutive palindromes that span a region of 200 kb, with conspicuous 20-kb stretches of highly conserved sequences among the four arms that show evidence of gene conversion. Four genes in the palindrome are homologous to genes in the sex determination regions of the closely related genus Populus, which is located on a different chromosome. These genes show distinct, floral-biased expression patterns compared to paralogous copies on autosomes. Conclusion: The presence of palindromes in sex chromosomes of mammals and plants highlights the intrinsic importance of these features in adaptive evolution in the absence of recombination. Convergent evolution is driving both the independent establishment of sex chromosomes as well as their fine-scale sequence structure.

show abstract

Sex-specific polymorphism of MET1 and ARR17 genes in Populus × sibirica

Cited by 18 publications

References 44 publications

A general model to explain repeated turnovers of sex determination in the Salicaceae

A general model to explain repeated turnovers of sex determination in the Salicaceae

A Willow Sex Chromosome Reveals Convergent Evolution of Complex Palindromic Repeats

A willow sex chromosome reveals convergent evolution of complex palindromic repeats

Contact Info

Product

Resources

About