Alternation of generations – unravelling the underlying molecular mechanism of a 165‐year‐old botanical observation

Characteristically, land plants exhibit a life cycle with an ‘alternation of generations’ and thus alternate between a haploid gametophyte and a diploid sporophyte. At meiosis and fertilisation the transitions between these two ontogenies take place in distinct single stem cells. The evolutionary invention of an embryo, and thus an upright multicellular sporophyte, in the ancestor of land plants formed the basis for the evolution of increasingly complex plant morphologies shaping Earth's ecosystems. Recent research employing the moss Physcomitrella patens revealed the homeotic gene BELL1 as a master regulator of the gametophyte‐to‐sporophyte transition. Here, we discuss these findings in the context of classical botanical observations.     

Ancestry of plant MADS-box genes revealed by bryophyte (Physcomitrella patens) homologues

Three MADS-box cDNA clones and two corresponding genomic sequences (gDNAs) have been isolated from the bryophyte Physcomitrella patens and sequenced. Our findings indicate that the genes may be expressed in a tissue- or age-specific manner, and that expression of one of them is regulated by an alternative splicing mechanism. Conceptual translation of the clones reveals that the encoded MADS-domain proteins have the typical plant-domain pattern (MIKC). Additionally, there is a high degree of conservation of intron number and positions between angiosperm MADS-box genes and the moss loci. These observations confirm the homology of moss and higher plant MADS-box genes. We conclude that the MIKC pattern evolved in MADS-box genes after the separation of the plant lineage from that of fungi and animals, and that it must have been present in the common ancestor of mosses, ferns and seed plants. Therefore it evolved at least 400 million yr ago. Phylogenetic analysis of a large subset of the sequenced plant MADS-box genes, incorporating those from P. patens , indicates that the bryophyte genes are not orthologues of spermatophyte genes belonging to any of the well recognized higher plant gene subfamilies. This conclusion accords well with reports that the known fern MADS-box genes also comprise subfamilies distinct from those of higher plants. Therefore we tentatively propose that the gene duplication and diversification events that created the MADS-box gene subfamilies, discernible in extant angiosperm and other spermatophyte groups, occurred after separation of the moss and fern lineages from the lineage which produced the higher plants.     

Sexual conflict and the alternation of haploid and diploid generations

Land plants possess a multicellular diploid stage (sporophyte) that begins development while attached to a multicellular haploid progenitor (gametophyte). Although the closest algal relatives of land plants lack a multicellular sporophyte, they do produce a zygote that grows while attached to the maternal gametophyte. The diploid offspring shares one haploid set of genes with the haploid mother that supplies it with resources and a paternal haploid complement that is not shared with the mother. Sexual conflict can arise within the diploid offspring because the offspring's maternal genome will be transmitted in its entirety to all other sexual and asexual offspring that the mother may produce, but the offspring's paternally derived genes may be absent from these other offspring. Thus, the selective forces favouring the evolution of genomic imprinting may have been present from the origin of modern land plants. In bryophytes, where gametophytes are long-lived and capable of multiple bouts of asexual and sexual reproduction, we predict strong sexual conflict over allocation to sporophytes. Female gametophytes of pteridophytes produce a single sporophyte and often lack means of asexual reproduction. Therefore, sexual conflict is predicted to be attenuated. Finally, we explore similarities among models of mate choice, offspring choice and segregation distortion.     

A fundamental plant evolutionary problem: the origin of land-plant sporophyte; is a new hypothesis possible?

The origin of the sporophyte in land plants represents a fundamental phase in the plant evolution. Today this subject is controversial and, in my opinion, scarcely considered in our textbooks and journals of botany, in spite of its importance. There are two conflicting theories concerning the origin of the alternating generations in land plants: the "antithetic" and the "homologous" theory. These have never been fully resolved. The antithetic theory maintains that the sporophyte and gametophyte generations are fundamentally dissimilar and that the sporophyte originated in an ancestor organism with haplontic cycle by the zygote dividing mitotically rather than meiotically, and with a developmental pattern not copying the developmental events of the gametophyte. The sporophyte generation was an innovation of critical significance for the land-plant evolution. By contrast, the homologous theory simply stated that a mass of cells forming mitotically from the zygote adopted the same developmental plan of the gametophyte, but giving origin to a diploid sporophyte. In this context, a very important question concerns the possible ancestor or ancestors of the land plants. Considerable evidences at morphological, cytological, ultrastructural, biochemical and, especially, molecular level, strongly suggest that the land plants or Embryophyta (both vascular and non-vascular) evolved from green algal ancestor(s), similar to those belonging to the genus Coleochaete, Chara and Nitella, living today. Their organism is haploid for most of their life cycle, and diploid only in the zygote phase (haplontic cycle). On the contrary, the land plants are characterized by a diplo-haplontic life cycle. Several questions are implied in these theories, and numerous problems remain to be solved, such as, for example, the morphological difference between gametophyte and sporophyte (heteromorphism, already present in the first land plants, the bryophytes), and the strong gap existing between these last with a sporophyte dependent on the gametophyte, and the pteridophytes having the gametophyte and sporophyte generations independent. On the ground of all of the evidences on the ancestors of the land plants, the antithetic theory is considered more plausible than the homologous theory. Unfortunately, no phylogenetic relationship exists between some green algae with diplontic life cycle and the land plants. Otherwise, perhaps, it should be possible to hypothesize another scenario in which to place the origin of the alternating generations of the land plants. In this case, could the gametophyte be formed by gametes produced from the sporophyte, through their mitoses or a delayed fertilization process?     

Functional Conservation of MIKC*-Type MADS Box Genes in Arabidopsis and Rice Pollen Maturation

There are two groups of MADS intervening keratin-like and C-terminal (MIKC)-type MADS box genes, MIKC^C type and MIKC* type. In seed plants, the MIKC^C type shows considerable diversity, but the MIKC* type has only two subgroups, P- and S-clade, which show conserved expression in the gametophyte. To examine the functional conservation of MIKC*-type genes, we characterized all three rice (Oryza sativa) MIKC*-type genes. All three genes are specifically expressed late in pollen development. The single knockdown or knockout lines, respectively, of the S-clade MADS62 and MADS63 did not show a mutant phenotype, but lines in which both S-clade genes were affected showed severe defects in pollen maturation and germination, as did knockdown lines of MADS68, the only P-clade gene in rice. The rice MIKC*-type proteins form strong heterodimeric complexes solely with partners from the other subclade; these complexes specifically bind to N10-type C-A-rich-G-boxes in vitro and regulate downstream gene expression by binding to N10-type promoter motifs. The rice MIKC* genes have a much lower degree of functional redundancy than the Arabidopsis thaliana MIKC* genes. Nevertheless, our data indicate that the function of heterodimeric MIKC*-type protein complexes in pollen development has been conserved since the divergence of monocots and eudicots, roughly 150 million years ago.     

Characterization of the Selaginella remotifolia MADS-box gene

Recent progress in plant molecular genetics has revealed that floral organ development is regulated by several homeotic selector genes, most of which belong to the MADS-box gene family. Here we report on SrMADS1,a MIKC(c)-type MADS-box gene from Selaginella, a spikemoss belonging to the lycophytes. SrMADS1 phylogenetically forms a monophyletic clade with genes of the LAMB2 group, which are MIKC(c) genes of the clubmoss Lycopodium, and is expressed in whole sporophytic tissues except roots and rhizophores. Our results and the previous report on Lycopodium MIKC(c) genes suggest that the ancestral MIKC(c )gene of primitive dichotomous plants in the early Devonian was involved in the development of basic sporophytic tissues such as shoot, stem, and sporangium.     

Generating Autotetraploid Sporophytes and Their Use in Analyzing Mutations Affecting Gametophyte Development in the Fern Ceratopteris

The haploid gametophytes of the fern Ceratopteris richardii are autotrophic and develop independently of the diploid sporophyte plant. While haploid genetics is useful for screening and characterizing mutations affecting gametophyte development in Ceratopteris, it is difficult to assess whether a gametophytic mutation is dominant or recessive or to determine allelism by complementation analysis in a haploid organism. This report describes how apospory can be used to produce genetically marked polyploid sporophytes whose gametophyte progeny are heterozygous for mutations affecting sex determination in the gametophyte and a known recessive mutation affecting the phenotype of both the gametophyte and sporophyte. The segregation ratios of wild-type to mutant phenotypes in the gametophyte progeny of polyploid sporophyte plants indicate that all of the mutations examined are recessive. The presence of many multivalents and few univalents in meiotic chromosome preparations of spore mother cells confirm that the sporophyte plants assayed are polyploid. The DNA content of the sperm of their progeny gametophytes was also found to be approximately twice that of sperm from wild-type haploid gametophytes.     

ALTERNATION OF GENERATIONS IN LAND PLANTS: NEW PHYLOGENETIC AND PALAEOBOTANICAL EVIDENCE

Current ideas on the evolution of alternation of generations in land plants are reviewed in the context of important recent advances in plant systematics and the discovery of remarkable new palaeobotanical evidence on early embryophyte life cycles. An overview of relationships in major groups of green plants is presented together with a brief review of the early fossil record as a prelude to discussing hypotheses of life cycle evolution. Recent discoveries of life cycles in the early fossil record are described and assessed. The newly discovered gametophyte and sporophyte associations are based on exceptionally well-preserved material from the Rhynie Chert, Scotland (Middle Devonian: 380–408 Myr) and compression fossils from other Devonian localities. These data document diplobiontic life cycles in plants at the ‘protracheophyte’ and early tracheophyte level of organization. Furthermore, the early fossils have a more or less isomorphic alternation of generations, a striking departure from life cycles in extant embryophytes. This unexpected similarity between gametophyte and sporophyte calls for a cautious approach in identifying ploidy level in early groups. Viewed in a systematic context, the neontological and palaeontological data contribute towards the formulation of a coherent hypothesis of life cycle evolution in major, early embryophyte groups. Evidence from extant groups strongly supports a single direct origin of the diplobiontic life cycles of land plants from haploid, haplobiontic life cycles in ancestral ‘charophycean algae’. The interest of the new palaeobotanical data lies in its relevance to life cycle evolution at the restricted level of vascular plants rather than at the more general level of embryophytes (vascular plants plus ‘bryophytes’). The occurrence of morphologically complex, axial gametophytes in early vascular plants is consistent with the moss sister-group proposed in some cladistic analyses. Similarities of moss gametophytes to fossils in the vascular plant stem-group are discussed, and it is argued that the late appearance of mosses in the macrofossil record may be due to the problem of recognizing stem-group taxa. The new palaeobotanical evidence conflicts with previous hypotheses based on extant groups that interpret morphological simplicity as the plesiomorphic condition in the gametophytes of vascular plants. These new data indicate that a significant elaboration of both gametophyte and sporophyte occurred early in the tracheophyte lineage, and that the gametophytes of extant ‘pteridophytes’ are highly reduced compared to those of some of the earliest ‘protracheophytes’. Vestiges of this early morphological complexity may remain in the gametophytes of some extant groups such as Lycopodiaceae.     

Life history variation in gametophyte populations of the moss Ceratodon purpureus (Ditrichaceae)

The life cycles of mosses and other bryophytes are unique among land plants in that the haploid gametophyte stage is free-living and the diploid sporophyte stage is ephemeral and completes its development attached to the maternal gametophyte. Despite predictions that populations of haploids might contain low levels of genetic variation, moss populations are characterized by substantial variation at isozyme loci. The extent to which this is indicative of ecologically important life history variation is, however, largely unknown. Gametophyte plants from two populations of the moss Ceratodon purpureus were grown from single-spore isolates in order to assess variation in growth rates, biomass accumulation, and reproductive output. The data were analyzed using a nested analysis of variance, with haploid sib families (gametophytes derived from the same sporophyte) nested within populations. High levels of life history variation were observed within both populations, and the populations differed significantly in both growth and reproductive characteristics. Overall gametophytic sex ratios did not depart significantly from 1:1 within either population, but there was significant variation among families in both populations for progeny sex ratio. Some families produced predominantly male gametophytes, while others yielded predominantly females. Because C. purpureus has a chromosomal mechanism of sex determination, these observations suggest differential (but unpredictable) germination of male and female spores. Life history observations showed that male and female gametophytes are dimorphic in size, maturation rates, and reproductive output.     

An in vitro whole plant selection system: paraquat tolerant mutants in the fern Ceratopteris

Summary A whole plant selection system using the haploid gametophyte generation of the fern Ceratopteris richardii has been developed to select for mutations that confer resistance or tolerance to various selection pressures. The expression of the mutations can be analyzed and characterized in both the haploid gametophyte and diploid sporophyte generations. Genetic analyses are facilitated by the fern's rapid life cycle and the ease of manipulating the gametophyte generation. Selection for tolerance to the herbicide paraquat has yielded two mutants which have an increased tolerance to the herbicide in both the gametophyte and sporophyte generations. Both mutants exhibit single nuclear gene inheritance patterns and appear to be closely linked or allelic.     

TRANSITION TO A LAND FLORA: PHYLOGENETIC RELATIONSHIPS OF THE GREEN ALGAE AND BRYOPHYTES

Abstract— Separate cladistic analyses of the green algae, liverworts, and hornworts are presented. Classificatory and evolutionary implications of these analyses, in addition to our previously published cladistic analyses of mosses and the embryophytes as a whole, are discussed. The embryophytes are monophyletic, and are part of a larger monophyletic group that includes some of the green algae (the "charophytes"). Important evolutionary transformations in the early phylogeny of the land plants include: (1) retention of the zygote on the haploid plant (gametophyte), with the sporophyte generation arising de novo by delaying meiosis, (2) independent elaboration of an elongate sporophyte in some liverworts, some hornworts, and in the moss-tracheophyte clade, (3) independent origin of radial (axial) symmetry in the gametophyte in some liverworts and in the moss-tracheophyte clade, (4) independent origin of leaves on the gametophyte in some liverworts and in mosses, and (5) the unique development of a branching sporophyte with multiple sporangia in the tracheophytes.     

甘蓝型油菜MADS-box基因家族的鉴定与系统进化分析

MADS-box基因家族参与调控开花时间、花器官分化、根系生长、分生组织分化、子房和配子发育、果实膨大及衰老等植物生长发育的重要过程。基于甘蓝型油菜(Brassica napus)基因组测序数据,利用生物信息学方法对甘蓝型油菜MADS-box基因家族进行鉴定和注释及基因结构与系统进化分析。结果显示,在甘蓝型油菜中鉴定出307个MADS-box基因家族成员,根据进化关系可将其分为两大类型,I型(M-type)包含α、β、γ三个亚家族,II型(MIKC-type)包括MIKCC和MIKC*两个亚家族,MIKCC可进一步分为13个小类;甘蓝型油菜A基因组染色体上分布的MADS-box基因多于C基因组。在基因结构上,MIKC-type亚家族基因序列普遍比M-type长且含有较多的外显子;M-type亚家族蛋白序列中的motif数量为2–5个,MIKC-type亚家族蛋白序列中平均含有7个motif。拟南芥(Arabidopsis thaliana)与甘蓝型油菜MADS-box基因共线性分析结果显示,全基因组复制事件对MADS-box基因家族尤其是MIKC亚家族的扩张起重要作用;MIKC亚家族基因在进化过程中受到的选择压力约为M-type的2倍,这表明MIKC-type亚家族在进化过程中被选择性保留。