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Can you tell a tree from its branches?

Published online by Cambridge University Press:  15 September 2025

Chengyang Qian
Affiliation:
School of Mathematical Sciences and MOE-LSC, Shanghai Jiao Tong University, Shanghai, China
Yaokun Wu*
Affiliation:
School of Mathematical Sciences and MOE-LSC, Shanghai Jiao Tong University, Shanghai, China
Min Xie
Affiliation:
School of Mathematical Sciences and MOE-LSC, Shanghai Jiao Tong University, Shanghai, China
*
Corresponding author: Yaokun Wu, email: ykwu@sjtu.edu.cn
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Abstract

For each set X, an X-split is a partition of X into two parts. For each X-split S and each subset $Y\subseteq X$, the restriction of S on Y is the Y-split whose parts are obtained by intersecting the parts of S with Y. For a graph G with vertex set V, the G-coboundary size of a V-split S is the number of edges in G having non-empty intersections with both parts of S. Let T be a tree without degree-two vertices, and let V and L denote its vertex set and leaf set, respectively. For each positive integer k, a k-split on T is an L-split that is the restriction of a V-split with T-coboundary size k, while a score-k split on T is a k-split on T that is not any k′-split for any integer $k' \lt k$. Buneman’s split equivalence theorem states that the tree T is entirely encoded by its system of score-1 splits. We identify the unique exceptional case in which the tree T is not determined by its score-2 split system. To explore how our work can be extended to more general tree isomorphism problems, we propose several conjectures and open problems related to set systems and generalized Buneman graphs.

Information

Type
Research Article
Copyright
© The Author(s), 2025. Published by Cambridge University Press on behalf of The Edinburgh Mathematical Society.
Figure 0

Figure 1. Phylogenetic [6]-trees T and T′ are isomorphic but not [6]-isomorphic: (A) T and (B) T′

Figure 1

Figure 2. Two groups of trees with isomorphic score-2 split systems. A) $\mathtt{A}_{-\infty}$ B) $\widetilde{\mathtt{A}}_{-\infty}$ C) $\mathrm{K}_{1,3}$ D) $\mathtt{A}_0$ E) $\widetilde{\mathtt{A}}_0$

Figure 2

Figure 3. Three markers. A) $Y_1\mid \cdots \mid Y_{k+2}=\pi_{T,v} $ for some $v\in \mathrm{V}_T$ with $\deg_T(v)\geqslant 5$. B) $\{x,y\}$ is a cherry. C) $\{x,y,z\}$ is a claw.

Figure 3

Algorithm 1. Construct a phylogenetic X-tree from a split system and a k-partition of X

Figure 4

Algorithm 2. Reconstruct a phylogenetic tree T from $ \mathcal{P}_{T,2} $

Figure 5

Figure 4. Edge boundary of size two in a tree.

Figure 6

Figure 5. A tree with five leaves.

Figure 7

Figure 6. Five types of 2-special configurations (T, Y). Each Yi represents a subset of $X=\mathrm{L}_T$ within a corresponding subtree. See Definition 4.2. A) $\phi_T(Y)=k$ B) $\phi_T(Y)=4$ C) $\phi_T(Y)=3$ D) $\phi_T(Y)=3$ E) $\phi_T(Y)=4$

Figure 8

Figure 7. Excluding two possibilities in the proof of Lemma 4.5. A) $\widehat{\mathbf{S}}_{T,\{e_1,e_2\}}=U\mid W$, $\widehat{\mathbf{S}}_{T,\{e'_1,e'_2\}}=U'\mid W'$, $Y\subseteq U'\subseteq U'\cup \{v_1,v_2\}=U$. B) $\widehat{\mathbf{S}}_{T,\{e_1,e_2\}}=U\mid W$, $\widehat{\mathbf{S}}_{T,\{e'_1,e'_2\}}=U'\mid W'$, $Y\subseteq U'\subseteq U'\cup \{v_1\}=U$.

Figure 9

Figure 8. Distributions of Bi, Ci and D as described in Convention 4.6.

Figure 10

Figure 9. Different cases in the proof of Lemma 4.4. A) Case 1 B) Case 2 C) Case 3 D) Case 4

Figure 11

Figure 10. A possible tree appeared in the proof of Lemma 4.15.

Figure 12

Figure 11. Three pairs of trees with isomorphic 2-split systems. (A) $\mathtt{A}_2$, (B) $\mathtt{A}_3$, (C) $\mathtt{A}_4$, (D) $\widetilde{\mathtt{A}}_2$, (E) $\widetilde{\mathtt{A}}_3$, (F) $\widetilde{\mathtt{A}}_4$

Figure 13

Figure 12. Three binary trees. (A) $\mathtt{B}_1$, (B) $\mathtt{B}_2$, (C) $\mathtt{B}_3$

Figure 14

Figure 13. $\ell$ trees T sharing the same $ \mathcal{P}_{T,\leq \ell} $ and the same $ \mathcal{P}_{T,\ell + 1} $, where $ \ell \geqslant 2 $. (A) Trees $ T_{\ell,m} $, where $ m-1 \in [\ell -1 ] $. (B) The tree $ T_{\ell,1} $.